diff --git a/.github/workflows/ci_test_build_package.yml b/.github/workflows/ci_test_build_package.yml
new file mode 100644
index 0000000..d909a4a
--- /dev/null
+++ b/.github/workflows/ci_test_build_package.yml
@@ -0,0 +1,28 @@
+# # This workflow runs all available tests and builds the .jar files
+name: Varianstore CI
+
+# Trigger the workflow on push and pull request activity
+on: [push, pull_request]
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v3.1.0
+
+      # set up JDK 11
+      - name: Set up JDK 11
+        uses: actions/setup-java@v3.6.0
+        with:
+          distribution: 'corretto'
+          java-version: '11'
+          cache: maven
+
+      # build with maven and run tests with Postgresql
+      - name: Build with Maven and run tests with PostgreSQL
+        run: mvn --batch-mode -Dmicronaut.environments=test-postgres -Dtest='!life.qbic.db.mariadb.**' verify
+
+      # build with maven and run tests with MariaDB
+      - name: Build with Maven and run tests with MariaDB
+        run: mvn --batch-mode -Dmicronaut.environments=test-mariadb -Dtest='!life.qbic.db.postgres.**' verify
diff --git a/.github/workflows/create_publish_image.yml b/.github/workflows/create_publish_image.yml
new file mode 100644
index 0000000..4e32e14
--- /dev/null
+++ b/.github/workflows/create_publish_image.yml
@@ -0,0 +1,46 @@
+# This workflow uses actions that are not certified by GitHub.
+# They are provided by a third-party and are governed by
+# separate terms of service, privacy policy, and support
+# documentation.
+
+name: Create and publish a Docker image
+
+on:
+  push:
+    branches: ['release']
+
+env:
+  REGISTRY: ghcr.io
+  IMAGE_NAME: ${{ GITHUB_REPOSITORY_OWNER }}/variantstore
+
+jobs:
+  build-and-push-image:
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      packages: write
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v3
+
+      - name: Log in to the Container registry
+        uses: docker/login-action@f054a8b539a109f9f41c372932f1ae047eff08c9
+        with:
+          registry: ${{ env.REGISTRY }}
+          username: ${{ github.actor }}
+          password: ${{ secrets.GITHUB_TOKEN }}
+
+      - name: Extract metadata (tags, labels) for Docker
+        id: meta
+        uses: docker/metadata-action@98669ae865ea3cffbcbaa878cf57c20bbf1c6c38
+        with:
+          images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }}
+
+      - name: Build and push Docker image
+        uses: docker/build-push-action@ad44023a93711e3deb337508980b4b5e9bcdc5dc
+        with:
+          context: .
+          push: true
+          tags: ${{ steps.meta.outputs.tags }}
+          labels: ${{ steps.meta.outputs.labels }}
diff --git a/AUTHORS b/AUTHORS
index d86c6cf..1d69094 100644
--- a/AUTHORS
+++ b/AUTHORS
@@ -4,7 +4,7 @@
  * --------------------------------------------------------------------------
  *
  * The following people contributed to Variantstore. 
- * - Christopher Mohr
- * - Lukas Heumos
- * - Sven Fillinger
+ * - Christopher Mohr (https://github.com/christopher-mohr)
+ * - Lukas Heumos (https://github.com/zethson)
+ * - Sven Fillinger (https://github.com/sven1103)
  */
diff --git a/CHANGELOG.md b/CHANGELOG.md
index 99484a9..7f3d639 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,15 +3,46 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## v1.1.0 - The Proline Depot - 2022-12-06
+
+### `Added`
+
+- [#57](https://github.com/qbicsoftware/variantstore-service/pull/57) Add GitHub Actions to create and publish Docker image
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Add Database interface for PostgreSQL ([#37](https://github.com/qbicsoftware/variantstore-service/issues/37), [#38](https://github.com/qbicsoftware/variantstore-service/issues/38))
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Use [Micronaut Data](https://micronaut-projects.github.io/micronaut-data/latest/guide/)
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Factory classes for entities
+- [#52](https://github.com/qbicsoftware/variantstore-service/pull/52) Transaction repository for MariaDB
+- [#53](https://github.com/qbicsoftware/variantstore-service/pull/53) Ensembl gene import for PostgreSQL
+- [#58](https://github.com/qbicsoftware/variantstore-service/pull/58) Server-side view for Variantstore status
+- [#59](https://github.com/qbicsoftware/variantstore-service/pull/59) Documentation on OAuth 2.0 configuration
+- [#62](https://github.com/qbicsoftware/variantstore-service/pull/62) Endpoint/Controller for `project` entity
+
+### `Changed`
+
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Update Micronaut version to `3.x`
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Use [Testcontainers](https://www.testcontainers.org) for tests
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Use [Flyway](https://flywaydb.org) for database migration
+- [#50](https://github.com/qbicsoftware/variantstore-service/pull/50) Adapt configuration to work with MariaDB OR PostgreSQL
+- [#55](https://github.com/qbicsoftware/variantstore-service/pull/55), [#56](https://github.com/qbicsoftware/variantstore-service/pull/56) Extend documentation
+- [#64](https://github.com/qbicsoftware/variantstore-service/pull/64) Update dependencies, remove `log4j`
+
+### `Fixed`
+
+- [#52](https://github.com/qbicsoftware/variantstore-service/pull/52) Transaction registration during VCF import
+- [#59](https://github.com/qbicsoftware/variantstore-service/pull/59) OAuth 2.0 configuration
+- [#61](https://github.com/qbicsoftware/variantstore-service/pull/61) Variant import bug ([#60](https://github.com/qbicsoftware/variantstore-service/issues/60))
+
 ## v1.0.1 - 2021-03-26
 
 ### `Added`
 
 ### `Changed`
+
 - Extend usage documentation and add examples
 - [#43](https://github.com/qbicsoftware/variantstore-service/pull/43) - Prevent the creation of duplicate gene entries in the database ([#40](https://github.com/qbicsoftware/variantstore-service/issues/40))
 
 ### `Fixed`
+
 - [#43](https://github.com/qbicsoftware/variantstore-service/pull/43) - Fix parsing of Ensembl version ([#42](https://github.com/qbicsoftware/variantstore-service/issues/42))
 - [#43](https://github.com/qbicsoftware/variantstore-service/pull/43) - Fix `EnsemblParser` bug caused by missing `Gene` constructor ([#41](https://github.com/qbicsoftware/variantstore-service/issues/41))
 
diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
new file mode 100644
index 0000000..fc14480
--- /dev/null
+++ b/CONTRIBUTING.md
@@ -0,0 +1,11 @@
+# Contributing guide
+
+Thank you for investing your time in contributing to our project! We appreciate any bug reports, feature requests or feedback in general.
+
+## Issues
+
+If you find a bug or have a feature request, feel free to open an [issue](<https://github.com/qbicsoftware/variantstore-service/issues>).
+
+## Pull Requests
+
+If you want to contribute with changes to the code or documentation, feel free to open a pull request (PR) against the [development branch](https://github.com/qbicsoftware/variantstore-service/tree/development).
diff --git a/README.md b/README.md
new file mode 100644
index 0000000..fa188bd
--- /dev/null
+++ b/README.md
@@ -0,0 +1,42 @@
+# Variantstore
+
+[![Varianstore CI](https://github.com/qbicsoftware/variantstore-service/actions/workflows/ci_test_build_package.yml/badge.svg?branch=development)](https://github.com/qbicsoftware/variantstore-service/actions/workflows/ci_test_build_package.yml)
+[![release](https://img.shields.io/github/v/release/qbicsoftware/variantstore-service?include_prereleases)](https://github.com/qbicsoftware/variantstore-service/releases)
+[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)
+
+## Introduction
+
+The **Variantstore** is a Java/Groovy-based service application implemented using the [Micronaut framework](https://micronaut.io) and enables storage and access to information on genomic variants and metadata from a connected database *via* a RESTful API.
+
+## Features
+
+- Import variants as Variant Call Format (VCF) files, annotated using [SnpEff](http://snpeff.sourceforge.net) or [VEP](https://www.ensembl.org/info/docs/tools/vep/index.html>)
+- Import metadata in JSON together with variants (see [Usage](/docs/USAGE..md) for details)
+- Import gene information (Ensembl, GFF3 files)
+- Support for [MariaDB](https://mariadb.com) and [PostgreSQL](https://www.postgresql.org) backend
+- Query information on variants, genes, and cases via (secured) REST endpoints
+- Ask Beacon endpoint if a specific variant exists in the store
+- Export variants in Variant Call Format (VCF) and [FHIR](https://www.hl7.org/fhir/)
+
+## Full Documentation
+
+See [Documentation](/docs/README.md) for the full detailed installation, run and configuration instructions.
+
+Detailed documentation of the RESTful API is additionally available on [SwaggerHub](https://app.swaggerhub.com/apis/christopher-mohr/variantstore/).
+
+## Database
+
+In the current version, the **Variantstore** service can be used with a MariaDB and PostgreSQL database. If you want to use a different DBMS, you have to provide an implementation for the `VariantstoreStorage` interface, make sure to use the same database model and set up the datasource accordingly in the `application.yml`.
+
+## Contributions and Support
+
+If you would like to contribute to this pipeline or, please see the [contributing guidelines](/CONTRIBUTING.md).
+
+For further information or help, don't hesitate to get in touch with us via [mail](mailto:christopher.mohr@uni-tuebingen.de) or [Twitter](https://twitter.com/cmohr_tue).
+
+## Credits
+
+The Variantstore was created within the [DIFUTURE](https://difuture.de) (Data Integration for Future Medicine) Consortium.
+
+This service was designed and implemented by [Christopher Mohr](https://github.com/christopher-mohr).
+For a full list of authors, please refer to the file [AUTHORS](AUTHORS).
diff --git a/README.rst b/README.rst
deleted file mode 100644
index 4da2cdb..0000000
--- a/README.rst
+++ /dev/null
@@ -1,51 +0,0 @@
-
-.. image:: https://travis-ci.com/qbicsoftware/variantstore-service.svg
-    :target: https://travis-ci.com/qbicsoftware/variantstore-service
-    :alt: Travis Build Status
-
-.. image:: https://readthedocs.org/projects/oncostore-proto-project/badge/?version=latest
-    :target: https://oncostore-proto-project.readthedocs.io/en/latest/?badge=latest
-    :alt: Documentation Status
-
-Variantstore
-============
-The **Variantstore** is a Java/Groovy-based service application implemented using the `Micronaut framework <https://micronaut.io>`_ and enables storage and access to information on genomic variants and metadata from a connected database *via* a RESTful API. 
-
-
-Features
---------
-- Import variants (VCF files, annotated using `SnpEff <http://snpeff.sourceforge.net>`_ or `VEP <https://www.ensembl.org/info/docs/tools/vep/index.html>`_)
-- Import metadata in JSON together with variants (see `Usage <https://oncostore-proto-project.readthedocs.io/en/latest/usage.html>`_ for details)
-- Import gene information (Ensembl, GFF3 files)
-- Query information on variants, genes, and cases via (secured) REST endpoints
-- Ask Beacon endpoint if a specific variant exists in the store
-- Export variants in Variant Call Format (VCF) and `FHIR <https://www.hl7.org/fhir/>`_
-
-
-Documentation
--------------
-Please visit the `Documentation <https://oncostore-proto-project.readthedocs.io/en/latest/>`_ for detailed installation, run and configuration instructions.
-
-Detailed documentation of the RESTful API is additionally available on `SwaggerHub <https://app.swaggerhub.com/apis/christopher-mohr/variantstore/0.6>`_.
-
-
-Database
---------
-In the current version, the **Variantstore** service can be used with a MariaDB database. If you want to use a different DBMS,
-make sure to specify the database model, set up the datasource in the ``application.yml``, and provide an implementation for the ``VariantstoreStorage`` interface.
-
-We are currently working on the support of `PostgreSQL <https://www.postgresql.org/>`_. 
-
-Contribute
-----------
-The contribution guidelines can be found on `Contributing <https://oncostore-proto-project.readthedocs.io/en/latest/contributing.html>`_.
-
-
-Credits
--------
-The Variantstore was created within the `DIFUTURE <https://difuture.de>`_ (Data Integration for Future Medicine) Consortium.
-
-This service was designed by `Christopher Mohr <https://github.com/christopher-mohr>`_ and implemented by `Christopher Mohr <https://github.com/christopher-mohr>`_ and `Lukas Heumos <https://github.com/zethson>`_.
-For a full list of authors, please refer to the file `AUTHORS <https://github.com/qbicsoftware/variantstore-service/blob/master/AUTHORS>`_.
-
-Feel free to contribute!
diff --git a/docs/CONFIGURATION.md b/docs/CONFIGURATION.md
new file mode 100644
index 0000000..9b288b3
--- /dev/null
+++ b/docs/CONFIGURATION.md
@@ -0,0 +1,106 @@
+# Configuration
+
+The configuration of the Variantstore instance is essentially done by setting the environment variables which are used in the [application.yml](../src/main/resources/application.yml). If you want/need to set other properties, please refer to the [Micronaut Documentation](https://docs.micronaut.io/latest/guide/#introduction).
+
+## Server
+
+You can set the port on which the Variantstore instance is supposed to run by setting the optional environment variable `VARIANTSTORE_PORT`(default: `8080`).
+
+```yml
+server:
+    port: ${variantstore-port:8080}
+```
+
+In addition, you can enable HTTPS support by setting `VARIANTSTORE_SSL_ENABLED` to `true` and enable the generation of a self-isgned certificate by Micronaut (`VARIANTSTORE_SSL_SELFSIGNED`).
+
+## Security (Authentication and Authorization)
+
+Security (authentication and authorization) is enabled by default but you can deactivate it by setting the environment variable `VARIANTSTORE_SECURITY_ENABLED` to `false`. If security is enabled all protected endpoints (i.e. all endpoints except the `/beacon` endpoint) can only be accessed by authenticated users.
+
+In addition to that, the Variantstore supports authentication with OAuth 2.0 servers. This includes support for the OpenID standard. Authentication using Keycloak as provider has been tested. However, other provider that support OpenID such as [Okta](https://developer.okta.com/), [AWS Cognito](https://aws.amazon.com/cognito), and [Google](https://developers.google.com/identity/protocols/OpenIDConnect) should work as well when configured properly.
+
+Authentication mode is set to `idtoken` by default. The mode can be changed by setting the environment variable `VARIANTSTORE_AUTHENTICATION_MODE`. Please refer to the official Micronaut [docs](https://micronaut-projects.github.io/micronaut-security/latest/guide/#authenticationStrategy) for valid values.
+
+In order to enable authentication with OAuth 2.0 servers, set `VARIANTSTORE_OAUTH2_ENABLED` to `true` and provide all necessary details using the following environment variables:
+
+* `VARIANTSTORE_OAUTH2_CLIENT_ID`
+* `VARIANTSTORE_OAUTH2_CLIENT_SECRET`
+* `VARIANTSTORE_OAUTH2_ISSUER`
+* `VARIANTSTORE_OAUTH2_AUTH_URL`
+* `VARIANTSTORE_OAUTH2_TOKEN_URL`
+
+> You can check out the official Micronaut security [docs](https://micronaut-projects.github.io/micronaut-security/latest/guide/#oauth) for configuration examples.
+
+## Database
+
+In the current version, the **Variantstore** service can be used with a PostgreSQL or MariaDB database instance. If you would like to use a different DBMS, you have to provide an implementation for the `VariantstoreStorage` interface, make sure to use the same database model as provided and set up the data source accordingly in the `application.yml`.
+
+The main database [model](/models/) expected by the **Variantstore** looks like the following for the currently supported two database systems:
+
+<details>
+  <summary>PostgreSQL schema</summary>
+
+  ![Variantstore model diagram](images/variantstore-model-diagram-postgresql.png)
+</details>
+
+<details>
+  <summary>MariaDB schema</summary>
+
+  ![Variantstore model diagram](images/variantstore-model-diagram.png)
+</details>
+
+\
+Additionally, a database with the following [table](/models/transaction-db.sql) is needed to track the import transactions in the Variantstore:
+
+![Variantstore transaction model diagram](images/transaction-model-diagram-postgresql.png)
+
+ The `Variantstore` data source can be configured by setting the following environment variables: `DB_HOST` (database host address), `DB_NAME` (database name), `DB_USER` (database user) and `DB_PWD` (database password). In addition, `DB_TRANSACTION_HOST`, `DB_TRANSACTION_NAME`, `DB_TRANSACTION_USER`, and `DB_TRANSACTION_PW` have to be specified for the transaction database.
+
+If you need to change or add additional properties to the JDBC database connection URL, please do so in the `application.yml`.
+
+```yml
+datasources:
+    variantstore_postgres:
+        url: jdbc:postgresql://${db-host:""}/${db-name:""}
+        username: ${db-user:""}
+        password: ${db-pwd:""}
+        driverClassName: org.postgresql.Driver
+    transactions:
+        url: jdbc:postgresql://${db-transaction-host:""}/${db-transaction-name:""}?...
+        username: ${db-transaction-user:""}
+        password: ${db-transaction-pwd:""}
+        driverClassName: org.postgresql.Driver
+    #variantstore_mariadb:
+    #   url: jdbc:mariadb://${db-host:""}/${db-name:""}?...
+    #   username: ${db-user:""}
+    #   password: ${db-pwd:""}
+    #   driverClassName: org.mariadb.jdbc.Driver
+    #transactions_mariadb:
+    #   url: jdbc:mariadb://${db-transaction-host:""}/${db-transaction-name:""}?...
+    #   username: ${db-transaction-user:""}
+    #   password: ${db-transaction-pwd:""}
+    #   driverClassName: org.mariadb.jdbc.Driver
+```
+
+The data source configuration is set to PostgreSQL by default. If you want to use a MariaDB database comment out `variantstore_postgres` and `transactions` and uncomment `variantstore_mariadb` and `transactions_mariadb`. Further, `database.specifier` has to be set to `variantstore-mariadb`. Default:
+
+```yml
+database:
+    specifier: variantstore-postgres
+```
+
+Additionally, you have to enable (`enabled: true`) Flyway migration for the MariaDB data sources and disable it for the PostgreSQL data sources (`enabled: false`) below in the Flyway block:
+
+```yml
+flyway:
+  datasources:
+  ...
+```
+
+## Import
+
+The import of variants to the store happens in batches (default: 250.000). If you would like to change the default batch size, you can use the environment variable `MAX_NUMBER_VARIANTS_PER_BATCH`.
+
+## Logging
+
+All requests to the Variantstore are logged. The default location is ``/tmp`` but you can specify a different location by setting the environment variable ``SERVICES_LOG_PATH``. The generated log file is called ``variantstore.log`` whereas older log files follow the following naming scheme: ``variantstore.%d{dd-MMM}.log.gz"``
diff --git a/docs/INSTALLATION.md b/docs/INSTALLATION.md
new file mode 100644
index 0000000..6238616
--- /dev/null
+++ b/docs/INSTALLATION.md
@@ -0,0 +1,44 @@
+# Installation
+
+The following describes the minimal steps that have to be taken in order to install a Variantstore instance. You can either [build](#Build) the project from scratch or [run](#Run) the prebuilt `JAR` file.
+
+## Requirements
+
+Variantstore runs on Java 11. Building Variantstore requires Maven, however note that a maven wrapper is provided under the folder [.mvn](/.mvn).
+
+### Database
+
+The complete installation of the Variantstore includes setting up and configuring the databases to store the genomic information. Details can be found under [CONFIGURATION](CONFIGURATION.md).
+
+## Build
+
+To compile and run the project:
+
+```bash
+git clone git@github.com:qbicsoftware/variantstore-service.git
+cd variantstore-service/
+mvn clean compile
+mvn exec:exec
+```
+
+To build the project:
+
+```bash
+git clone git@github.com:qbicsoftware/variantstore-service.git
+cd variantstore-service/
+mvn clean package
+```
+
+This command will create an executable `JAR` in your current working directory under `/target`.
+
+## Run
+
+To run a prebuilt Variantstore instance, download the [latest](https://github.com/qbicsoftware/variantstore-service/releases/latest/) Variantstore release and execute.
+
+```bash
+java -jar variantstore-{version}.jar
+```
+
+## Docker
+
+Docker images are created for [Releases](https://github.com/qbicsoftware/variantstore-service/releases) and are available under [Packages](https://github.com/orgs/qbicsoftware/packages?repo_name=variantstore-service).
diff --git a/docs/Makefile b/docs/Makefile
deleted file mode 100644
index 3f2524f..0000000
--- a/docs/Makefile
+++ /dev/null
@@ -1,20 +0,0 @@
-# Minimal makefile for Sphinx documentation
-#
-
-# You can set these variables from the command line.
-SPHINXOPTS    =
-SPHINXBUILD   = sphinx-build
-SPHINXPROJ    = spark-service
-SOURCEDIR     = source
-BUILDDIR      = build
-
-# Put it first so that "make" without argument is like "make help".
-help:
-	@$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
-
-.PHONY: help Makefile
-
-# Catch-all target: route all unknown targets to Sphinx using the new
-# "make mode" option.  $(O) is meant as a shortcut for $(SPHINXOPTS).
-%: Makefile
-	@$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
diff --git a/docs/README.md b/docs/README.md
new file mode 100644
index 0000000..082114f
--- /dev/null
+++ b/docs/README.md
@@ -0,0 +1,5 @@
+# Variantstore documentation
+
+1. [Installation](INSTALLATION.md)
+2. [Configuration](CONFIGURATION.md)
+3. [Usage](USAGE.md)
diff --git a/docs/USAGE.md b/docs/USAGE.md
new file mode 100644
index 0000000..74f7f57
--- /dev/null
+++ b/docs/USAGE.md
@@ -0,0 +1,97 @@
+# Usage
+
+## Quick Start
+
+Stable releases of the Variantstore are bundled as an executable `jar` and can be downloaded from [Releases](https://github.com/qbicsoftware/variantstore-service/releases). See [INSTALLATION](INSTALLATION.md) for more information.
+
+Please make sure that the required environment variables are set accordingly as described in [CONFIGURATION](CONFIGURATION.md).
+
+## Import variants
+
+Variants can be imported to the store by using a `POST` request to the corresponding **/variants** endpoint.
+The variants have to be associated with metadata and the following properties have to be specified in `JSON` schema.
+
+```json
+"case": {"identifier": "string"} "variant_annotation": {"version": "string", "name": "string", "doi": "string"}, "variant_calling": {"version": "string", "name": "string", "doi": "string"}, "reference_genome": {"source": "string", "version": "string", "build": "string"}, "is_somatic": "boolean", "samples": [{"identifier": "string", "cancerEntity": "string"}]
+```
+
+For example using `curl` your upload command would look like this:
+
+```bash
+curl -X 'POST' \
+'${host}:${variantstore-port}/variants' \
+-H 'accept: application/json' \
+-H 'Content-Type: multipart/form-data' \
+-F metadata='{"case": {"identifier": "do1234"}, "variant_annotation": {"version": "bioconda::4.3.1t", "name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": "true", "samples": [{"identifier": "S123456", "cancerEntity": "HCC"}], "reference_genome": {"source": "GATK", "version": "unknown", "build": "hg38"}, "variant_calling": {"version": "bioconda::2.9.10", "name": "Strelka", "doi": "10.1038/s41592-018-0051-x"}}' \
+-F files=@/path/to/variants.vcf.gz
+```
+
+## Import additional gene information
+
+Information on genes, such as `biotype`, `name`, and `description`, can be imported to the store in `gff3` format.  
+
+For example using `curl` your upload command would look like this:
+
+```bash
+curl -X 'POST' \
+'${host}:${variantstore-port}'/genes' \
+-H 'accept: application/json' \
+-H 'Content-Type: multipart/form-data' \
+-F 'files=@/path/to/genes.GRCh38.87.gff3'
+```
+
+This feature is currently supported for `gff3` files derived from Ensembl. The Ensembl version (87 in the example above) is expected to be part of the file name otherwise the corresponding database field will be empty.
+
+## Retrieve data from the store
+
+Stored data can be retrieved from the store by sending `HTTP GET` requests.
+
+For example if you want to get a variant from the store at a specific genomic position using `curl` your command would look like this:
+
+```bash
+curl '${host}:${variantstore-port}'/variants?startPosition=22310284'
+```
+
+The full list of available endpoints can be seen below.
+
+## REST API
+
+The detailed documentation of the REST endpoints provided by the **Variantstore** can be found on [SwaggerHub](https://app.swaggerhub.com/apis/christopher-mohr/variantstore/). Additionally, views for the generated OpenAPI specification are generated as swagger-ui and rapidoc views. After startup, these views are accessible via `/swagger-ui` and `/rapidoc`.
+
+<dl>
+  <dt><b>GET /genes/{id}</b></dt>
+  <dd>Request a gene</dd>
+  <dt><b>GET /genes</b></dt>
+  <dd>Request a set of genes</dd>
+  <dt><b>POST /genes</b></dt>
+  <dd>Upload gene information</dd>
+  <dt><b>GET /variants/{id}</b></dt>
+  <dd>Request a variant</dd>
+  <dt><b>GET /variants</b></dt>
+  <dd>Request a set of variants</dd>
+  <dt><b>POST /variants</b></dt>
+  <dd>Add variants to the store</dd>
+  <dt><b>GET /variants/upload/status/{id}</b></dt>
+  <dd>Request the variant upload status</dd>
+  <dt><b>GET /cases/{id}</b></dt>
+  <dd>Request a case</dd>
+  <dt><b>GET /cases</b></dt>
+  <dd>Request a set of cases</dd>
+  <dt><b>GET /samples/{id}</b></dt>
+  <dd>Request a sample</dd>
+  <dt><b>GET /samples</b></dt>
+  <dd>Request a set of samples</dd>
+  <dt><b>GET /beacon/query</b></dt>
+  <dd>Query the beacon for a variant</dd>
+  </dl>
+
+### Built-in Endpoints
+
+<dl>
+    <dt><b>GET /health</b></dt>
+    <dd>Status of the Variantstore service</dd>
+    <dt><b>GET /swagger-ui</b></dt>
+    <dd>OpenAPI documentation in swagger-ui format</dd>
+    <dt><b>GET /rapidoc</b></dt>
+    <dd>OpenAPI documentation in rapidoc format</dd>
+</dl>
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diff --git a/docs/source/authors.rst b/docs/source/authors.rst
deleted file mode 100644
index 1a3a80f..0000000
--- a/docs/source/authors.rst
+++ /dev/null
@@ -1,7 +0,0 @@
-Authors
-=======
-
-Variantstore service was designed by `Christopher Mohr <https://github.com/christopher-mohr>`_ and implemented by `Christopher Mohr <https://github.com/christopher-mohr>`_ and `Lukas Heumos <https://github.com/zethson>`_.
-
-For a complete list of authors please refer to `AUTHORS <https://github.com/qbicsoftware/variantstore-service/blob/master/AUTHORS>`_. 
-
diff --git a/docs/source/conf.py b/docs/source/conf.py
deleted file mode 100644
index 390bc7a..0000000
--- a/docs/source/conf.py
+++ /dev/null
@@ -1,168 +0,0 @@
-# -*- coding: utf-8 -*-
-#
-# Configuration file for the Sphinx documentation builder.
-#
-# This file does only contain a selection of the most common options. For a
-# full list see the documentation:
-# http://www.sphinx-doc.org/en/master/config
-
-# -- Path setup --------------------------------------------------------------
-
-# If extensions (or modules to document with autodoc) are in another directory,
-# add these directories to sys.path here. If the directory is relative to the
-# documentation root, use os.path.abspath to make it absolute, like shown here.
-#
-# import os
-# import sys
-# sys.path.insert(0, os.path.abspath('.'))
-
-
-# -- Project information -----------------------------------------------------
-
-project = 'varianstore'
-copyright = '2020, qbicsoftware'
-author = 'Lukas Heumos'
-
-# The short X.Y version
-version = ''
-# The full version, including alpha/beta/rc tags
-release = '1.0.0'
-
-
-# -- General configuration ---------------------------------------------------
-
-# If your documentation needs a minimal Sphinx version, state it here.
-#
-# needs_sphinx = '1.0'
-
-# Add any Sphinx extension module names here, as strings. They can be
-# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
-# ones.
-extensions = [
-    'sphinx.ext.autodoc',
-    'sphinx.ext.todo',
-    'sphinx.ext.mathjax',
-    'sphinx.ext.viewcode',
-    'sphinx.ext.autosectionlabel',
-]
-
-# Add any paths that contain templates here, relative to this directory.
-templates_path = ['_templates']
-
-# The suffix(es) of source filenames.
-# You can specify multiple suffix as a list of string:
-#
-# source_suffix = ['.rst', '.md']
-source_suffix = '.rst'
-
-# The master toctree document.
-master_doc = 'index'
-
-# The language for content autogenerated by Sphinx. Refer to documentation
-# for a list of supported languages.
-#
-# This is also used if you do content translation via gettext catalogs.
-# Usually you set "language" from the command line for these cases.
-language = None
-
-# List of patterns, relative to source directory, that match files and
-# directories to ignore when looking for source files.
-# This pattern also affects html_static_path and html_extra_path .
-exclude_patterns = []
-
-# The name of the Pygments (syntax highlighting) style to use.
-pygments_style = 'sphinx'
-
-
-# -- Options for HTML output -------------------------------------------------
-
-# The theme to use for HTML and HTML Help pages.  See the documentation for
-# a list of builtin themes.
-#
-html_theme = 'default'
-
-# Theme options are theme-specific and customize the look and feel of a theme
-# further.  For a list of options available for each theme, see the
-# documentation.
-#
-# html_theme_options = {}
-
-# Add any paths that contain custom static files (such as style sheets) here,
-# relative to this directory. They are copied after the builtin static files,
-# so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ['_static']
-
-# Custom sidebar templates, must be a dictionary that maps document names
-# to template names.
-#
-# The default sidebars (for documents that don't match any pattern) are
-# defined by theme itself.  Builtin themes are using these templates by
-# default: ``['localtoc.html', 'relations.html', 'sourcelink.html',
-# 'searchbox.html']``.
-#
-# html_sidebars = {}
-
-
-# -- Options for HTMLHelp output ---------------------------------------------
-
-# Output file base name for HTML help builder.
-htmlhelp_basename = 'Variantstoredoc'
-
-
-# -- Options for LaTeX output ------------------------------------------------
-
-latex_elements = {
-    # The paper size ('letterpaper' or 'a4paper').
-    #
-    # 'papersize': 'letterpaper',
-
-    # The font size ('10pt', '11pt' or '12pt').
-    #
-    # 'pointsize': '10pt',
-
-    # Additional stuff for the LaTeX preamble.
-    #
-    # 'preamble': '',
-
-    # Latex figure (float) alignment
-    #
-    # 'figure_align': 'htbp',
-}
-
-# Grouping the document tree into LaTeX files. List of tuples
-# (source start file, target name, title,
-#  author, documentclass [howto, manual, or own class]).
-latex_documents = [
-    (master_doc, 'Variantstore.tex', 'Variantstore Documentation',
-     'Lukas Heumos', 'manual'),
-]
-
-
-# -- Options for manual page output ------------------------------------------
-
-# One entry per manual page. List of tuples
-# (source start file, name, description, authors, manual section).
-man_pages = [
-    (master_doc, 'Variantstore', 'Variantstore Documentation',
-     [author], 1)
-]
-
-
-# -- Options for Texinfo output ----------------------------------------------
-
-# Grouping the document tree into Texinfo files. List of tuples
-# (source start file, target name, title, author,
-#  dir menu entry, description, category)
-texinfo_documents = [
-    (master_doc, 'Variantstore', 'Variantstore Documentation',
-     author, 'Variantstore', 'One line description of project.',
-     'Miscellaneous'),
-]
-
-
-# -- Extension configuration -------------------------------------------------
-
-# -- Options for todo extension ----------------------------------------------
-
-# If true, `todo` and `todoList` produce output, else they produce nothing.
-todo_include_todos = True
diff --git a/docs/source/configuration.rst b/docs/source/configuration.rst
deleted file mode 100644
index 4c3c8ca..0000000
--- a/docs/source/configuration.rst
+++ /dev/null
@@ -1,62 +0,0 @@
-Configuration
-=============
-The configuration of the Variantstore instance is done by setting the environment variables which are used in the `application.yml <https://github.com/qbicsoftware/variantstore-service/blob/development/src/main/resources/application.yml>`_.
-
-::
-
-    server:
-    port: ${variantstore-port:8080}
-
-    ...
-
-    datasources:
-    default:
-        url: jdbc:mariadb://${db-host}/${db-name}?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
-        username: ${db-user}
-        password: ${db-pwd}
-        driverClassName: org.mariadb.jdbc.Driver
-    transactions:
-        url: jdbc:mariadb://${db-host}/transactions?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
-        username: ${db-user}
-        password: ${db-pwd}
-        driverClassName: org.mariadb.jdbc.Driver
-
-If you want to use a port other than 8080, set the optional environment variable ``VARIANTSTORE_PORT``. The default data source can be configured by the following environment variables: ``DB_HOST`` (database host address), ``DB_NAME`` (database name), ``DB_USER`` (database user) and ``DB_PWD`` (database password).
-It is expected that the ``default`` and ``transactions`` data sources run on the same host and use the same credentials. Please change the `application.yml` accordingly if this is not the case.
-
-Database
---------
-In the current version, the **Variantstore** service can be used with a MariaDB database. If you want to use a different DBMS,
-make sure to specify the database model, set up the datasource in the ``application.yml``, and provide an implementation for the ``VariantstoreStorage`` interface.
-
-The main database `model <https://github.com/qbicsoftware/variantstore-service/blob/development/models/varianstore-model.sql>`_ expected by the **Variantstore** is the following:
-
-.. image:: images/variantstore-model-diagram.png
-    :alt: Variantstore model diagram
-
-Additonally, a database with the following `table <https://github.com/qbicsoftware/variantstore-service/blob/development/models/transaction-db.sql>`_ is needed to track the transactions in the Variantstore:
-
-.. image:: images/transaction-model-diagram.png
-    :alt: Variantstore transaction model diagram
-
-Authentication and Authorization
---------------------------------
-Security (authentication and authorization) is enabled by default but you can deactivate it by setting the environment variable ``VARIANTSTORE_SECURITY_ENABLED`` to ``false``. If security is enabled all protected endpoints (i.e. all endpoints except the ``/beacon`` endpoint) can only be accessed by authenticated users.
-
-In addition to that, the Variantstore supports authentication with OAuth 2.0 servers. This includes support for the OpenID standard. At the moment we only support the option to use Keycloak as provider. 
-
-In order to enable authentication with OAuth 2.0 servers, set ``VARIANTSTORE_OAUTH2_ENABLED`` to ``true`` and provide all necessary details using the following environment variables:
- * ``VARIANTSTORE_OAUTH2_CLIENT_ID``
- * ``VARIANTSTORE_OAUTH2_CLIENT_SECRET``
- * ``VARIANTSTORE_OAUTH2_ISSUER``
- * ``VARIANTSTORE_OAUTH2_AUTH_URL``
- * ``VARIANTSTORE_OAUTH2_TOKEN_URL``
-
-.. hint::
-
-    You can check out the official Micronaut security `docs <https://micronaut-projects.github.io/micronaut-security/latest/guide/#oauth>`_ for an configuration examples.
-
-
-Logging
--------
-All requests to the Variantstore are logged. The default location is ``tmp`` but you can specify a different location by setting the environment variable ``SERVICES_LOG_PATH``. The generated log file is called ``variantstore.log`` whereas older log files follow the following naming scheme: ``variantstore.%d{dd-MMM}.log.gz"``
diff --git a/docs/source/contributing.rst b/docs/source/contributing.rst
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index 894ad46..0000000
--- a/docs/source/contributing.rst
+++ /dev/null
@@ -1,4 +0,0 @@
-Contributing
-============
-
-If you find a bug or have a feature request, feel free to open an `Issue <https://github.com/qbicsoftware/variantstore-service/issues>`_.
\ No newline at end of file
diff --git a/docs/source/history.rst b/docs/source/history.rst
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index ed03423..0000000
--- a/docs/source/history.rst
+++ /dev/null
@@ -1,5 +0,0 @@
-History
-=======
-
-
-
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diff --git a/docs/source/index.rst b/docs/source/index.rst
deleted file mode 100644
index 9ddcf84..0000000
--- a/docs/source/index.rst
+++ /dev/null
@@ -1,20 +0,0 @@
-Welcome to the Variantstore documentation!
-===================================================
-
-.. toctree::
-   :maxdepth: 2
-   :caption: Contents:
-
-   readme
-   installation
-   usage
-   configuration
-   contributing
-   known_issues
-   history
-   authors
-
-Indices and tables
-==================
-
-* :ref:`search`
diff --git a/docs/source/installation.rst b/docs/source/installation.rst
deleted file mode 100644
index c7a0c5c..0000000
--- a/docs/source/installation.rst
+++ /dev/null
@@ -1,27 +0,0 @@
-Installation
-============
-
-Requirements
-------------
-
-Variantstore runs on Java 8. Support for Java 9+ is experimental. Building Variantstore requires maven, however note that a maven wrapper is provided under the folder `.mvn <https://github.com/qbicsoftware/variantstore-service/tree/master/.mvn>`_.
-
-
-Compile the Project
---------
-
-.. code-block:: bash
-
-    mvn clean compile
-
-Build the Project
---------
-
-.. code-block:: bash
-
-   mvn clean package
-
-Setup Database
---------
-
-The complete installation of the Variantstore includes setting up the required databases to store the genomic information. Details can be found under :ref:`configuration`.
\ No newline at end of file
diff --git a/docs/source/known_issues.rst b/docs/source/known_issues.rst
deleted file mode 100644
index 81bdf77..0000000
--- a/docs/source/known_issues.rst
+++ /dev/null
@@ -1,4 +0,0 @@
-Known issues
-============
-
-There are currently no known issues.
\ No newline at end of file
diff --git a/docs/source/readme.rst b/docs/source/readme.rst
deleted file mode 100644
index 38ba804..0000000
--- a/docs/source/readme.rst
+++ /dev/null
@@ -1 +0,0 @@
-.. include:: ../../README.rst
\ No newline at end of file
diff --git a/docs/source/usage.rst b/docs/source/usage.rst
deleted file mode 100644
index 0ba8ecd..0000000
--- a/docs/source/usage.rst
+++ /dev/null
@@ -1,138 +0,0 @@
-Usage
-=====
-
-Quick Start
------------
-
-Stable releases of the Variantstore are bundled as an executable `jar` and can be downloaded from the `releases <https://github.com/qbicsoftware/variantstore-service/releases>`_ page. You can start the service by using the following command:
-
-.. code-block:: bash
-
-    java -jar variantstore-<version>.jar
-
-Please make sure that the required environment variables are set accordingly as described in :ref:`configuration`.
-
-Run service
------------
-
-.. code-block:: bash
-
-    mvn exec:exec
-
-Create executable jar
----------------------
-
-.. code-block:: bash
-
-    mvn clean package  
-
-This command will create an executable jar in your current working directory under /target.
-
-Import variants
----------------
-
-Variants can be imported to the store by using a `POST` request to the corresponding **/variants** endpoint.
-The variants have to be associated with metadata and the following properties have to be specified in `JSON` schema.
-
-.. code-block:: javascript
-
-    "case": {"identifier": "string"},
-    "variant_annotation": {"version": "string", "name": "string", "doi": "string"},
-    "variant_calling": {"version": "string", "name": "string", "doi": "string"},
-    "reference_genome": {"source": "string", "version": "string", "build": "string"},
-    "is_somatic": "boolean",
-    "samples": [{"identifier": "string", "cancerEntity": "string"}]
-
-For example using `curl` your upload command would look like this:
-
-.. code-block:: bash
-
-    curl -X 'POST' \
-    '${host}:${variantstore-port}/variants' \
-    -H 'accept: application/json' \
-    -H 'Content-Type: multipart/form-data' \
-    -F metadata='{"case": {"identifier": "do1234"}, "variant_annotation": {"version": "bioconda::4.3.1t", "name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": "true", "samples": [{"identifier": "S123456", "cancerEntity": "HCC"}], "reference_genome": {"source": "GATK", "version": "unknown", "build": "hg38"}, "variant_calling": {"version": "bioconda::2.9.10", "name": "Strelka", "doi": "10.1038/s41592-018-0051-x"}}' \
-    -F files=@/path/to/variants.vcf.gz
-
-Import additional gene information
-----------------------------------
-
-Information on genes, such as `biotype`, `name`, and `description`, can be imported to the store in `gff3` format.  
-
-For example using `curl` your upload command would look like this:
-
-.. code-block:: bash
-
-    curl -X 'POST' \
-    '${host}:${variantstore-port}'/genes' \
-    -H 'accept: application/json' \
-    -H 'Content-Type: multipart/form-data' \
-    -F 'files=@/path/to/genes.GRCh38.87.gff3'
-
-This feature is currently supported for `gff3` files derived from Ensembl. The Ensembl version (87 in the example above) is expected to be part of the file name otherwise the corresponding database field will be empty.
-
-
-Retrieve data from the store
-----------------------------
-
-Stored data can be retrieved from the store by sending `HTTP GET` requests.
-
-For example if you want to get a variant from the store at a specific genomic position using `curl` your command would look like this:
-
-.. code-block:: bash
-
-    curl '${host}:${variantstore-port}'/variants?startPosition=22310284'
-
-The full list of available endpoints can be seen below.
-
-
-REST API
---------
-The detailed documentation of the REST endpoints provided by the **Variantstore** can be found on `SwaggerHub <https://app.swaggerhub.com/apis/christopher-mohr/variantstore/1.0.1>`_. Additionally, views for the generated OpenAPI specification are generated as swagger-ui and rapidoc views. After startup, these views are accessible via /swagger-ui ``and`` .../rapidoc.
-
-| **GET /genes/{id}**
-| Request a gene
-
-| **GET /genes**
-| Request a set of genes
-
-| **POST /genes**
-| Upload gene information
-
-| **GET /variants/{id}**
-| Request a variant
-
-| **GET /variants**
-| Request a set of variants
-
-| **POST /variants**
-| Add variants to the store
-
-| **GET /variants/upload/status/{id}**
-| Request the variant upload status
-
-| **GET /cases/{id}**
-| Request a case
-
-| **GET /cases**
-| Request a set of cases
-
-| **GET /samples/{id}**
-| Request a sample
-
-| **GET /samples**
-| Request a set of samples
-
-| **GET /beacon/query**
-| Query the beacon for a variant
-
-**Built-in Endpoints**
-
-| **GET /health**
-| Status of the Variantstore service
-
-| **GET /swagger-ui**
-| OpenAPI documentation in swagger-ui format
-
-| **GET /rapidoc**
-| OpenAPI documentation in rapidoc format
\ No newline at end of file
diff --git a/images/transaction-model-diagram.png b/images/transaction-model-diagram.png
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diff --git a/models/V1__variantstore-model-postgres.sql b/models/V1__variantstore-model-postgres.sql
new file mode 100644
index 0000000..646b511
--- /dev/null
+++ b/models/V1__variantstore-model-postgres.sql
@@ -0,0 +1,710 @@
+--
+-- PostgreSQL database dump
+--
+
+-- Dumped from database version 13.2
+-- Dumped by pg_dump version 13.2
+
+CREATE SCHEMA IF NOT EXISTS variantstore;
+
+SET SCHEMA 'variantstore';
+
+--
+-- Name: project; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE project (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying NOT NULL
+);
+
+--
+-- Name: annotationsoftware; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+--
+-- Name: annotationsoftware_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware_consequence (
+    consequence_id bigint NOT NULL,
+    annotationsoftware_id bigint NOT NULL
+);
+
+--
+-- Name: consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE consequence (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    allele character varying,
+    codingchange character varying,
+    transcriptid character varying,
+    transcriptversion integer,
+    type character varying,
+    biotype character varying,
+    canonical boolean,
+    aachange character varying,
+    cdnaposition character varying,
+    cdsposition character varying,
+    proteinposition character varying,
+    proteinlength integer,
+    cdnalength integer,
+    cdslength integer,
+    impact character varying,
+    exon character varying,
+    intron character varying,
+    strand integer,
+    genesymbol character varying,
+    featuretype character varying,
+    distance integer,
+    warnings character varying
+);
+
+--
+-- Name: ensembl; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    version integer,
+    date character varying,
+    referencegenome_id bigint
+);
+
+--
+-- Name: ensembl_gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl_gene (
+    ensembl_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+--
+-- Name: entity; Type: TABLE; Schema: variantstore;
+-- id character varying NOT NULL,
+
+CREATE TABLE entity (
+    id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    project_id bigint NOT NULL
+);
+
+--
+-- Name: gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    symbol character varying,
+    name character varying,
+    biotype character varying,
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    synonyms character varying[],
+    geneid character varying,
+    description character varying,
+    strand character varying,
+    version integer
+);
+
+--
+-- Name: gene_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene_consequence (
+    consequence_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+--
+-- Name: genotype; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE genotype (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    genotype character varying,
+    readdepth integer,
+    filter character varying,
+    likelihoods character varying,
+    genotypelikelihoods character varying,
+    genotypelikelihoodshet character varying,
+    posteriorprobs character varying,
+    genotypequality integer,
+    haplotypequalities character varying,
+    phaseset character varying,
+    phasingquality integer,
+    alternateallelecounts character varying,
+    mappingquality integer
+);
+
+--
+-- Name: referencegenome; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    source character varying,
+    build character varying,
+    version character varying
+);
+
+--
+-- Name: referencegenome_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome_variant (
+    referencegenome_id bigint NOT NULL,
+    variant_id bigint NOT NULL
+);
+
+--
+-- Name: sample; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    cancerentity character varying,
+    entity_id bigint
+);
+
+--
+-- Name: sample_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample_variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    sample_id bigint,
+    variant_id bigint,
+    vcfinfo_id bigint,
+    genotype_id bigint
+);
+
+--
+-- Name: variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    ref character varying,
+    obs character varying,
+    somatic boolean,
+    identifier character varying,
+    databaseidentifier character varying
+);
+
+--
+-- Name: variant_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant_consequence (
+    variant_id bigint NOT NULL,
+    consequence_id bigint NOT NULL
+);
+
+--
+-- Name: variantcaller; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+--
+-- Name: variantcaller_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller_variant (
+    variant_id bigint NOT NULL,
+    variantcaller_id bigint NOT NULL
+);
+
+--
+-- Name: vcfinfo; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE vcfinfo (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    ancestralallele character varying,
+    allelecount character varying,
+    allelefrequency character varying,
+    numberalleles integer,
+    basequality integer,
+    cigar character varying,
+    dbsnp boolean,
+    hapmaptwo boolean,
+    hapmapthree boolean,
+    thousandgenomes boolean,
+    combineddepth integer,
+    endpos integer,
+    rms float8,
+    mqzero integer,
+    strandbias integer,
+    numbersamples integer,
+    somatic boolean,
+    validated boolean
+);
+
+--
+-- Name: annotationsoftware annotationsoftware_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware
+    ADD CONSTRAINT annotationsoftware_pkey PRIMARY KEY (id);
+
+--
+-- Name: consequence consequence_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY consequence
+    ADD CONSTRAINT consequence_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: ensembl ensembl_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: entity entity_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: gene gene_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene
+    ADD CONSTRAINT gene_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: genotype genotype_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY genotype
+    ADD CONSTRAINT genotype_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: project project_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY project
+    ADD CONSTRAINT project_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: referencegenome referencegenome_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome
+    ADD CONSTRAINT referencegenome_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: sample sample_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variant variant_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variant
+    ADD CONSTRAINT variant_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variantcaller variantcaller_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller
+    ADD CONSTRAINT variantcaller_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: vcfinfo vcfinfo_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY vcfinfo
+    ADD CONSTRAINT vcfinfo_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: as_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX as_unique ON annotationsoftware USING btree (name, version, doi);
+
+
+--
+-- Name: ascons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ascons_unique ON annotationsoftware_consequence USING btree (consequence_id, annotationsoftware_id);
+
+
+--
+-- Name: cons_gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_gene_unique ON gene_consequence USING btree (gene_id, consequence_id);
+
+
+--
+-- Name: cons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_unique ON consequence USING btree (allele, codingchange, transcriptid, transcriptversion, type, biotype, canonical, aachange, cdnaposition, cdsposition, proteinposition, proteinlength, cdnalength, cdslength, impact, exon, intron, strand, genesymbol, featuretype, distance);
+
+
+--
+-- Name: ensembl_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ensembl_unique ON ensembl USING btree (version, date, referencegenome_id);
+
+--
+-- Name: gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX gene_unique ON gene USING btree (geneid);
+
+
+--
+-- Name: genotype_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX genotype_unique ON genotype USING btree (genotype, readdepth, filter, likelihoods, genotypelikelihoods, genotypelikelihoodshet, posteriorprobs, genotypequality, haplotypequalities, phaseset, phasingquality, alternateallelecounts, mappingquality);
+
+
+--
+-- Name: idx_chromosome; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_chromosome ON variant USING btree (chr);
+
+
+--
+-- Name: idx_constype; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_constype ON consequence USING btree (type);
+
+
+--
+-- Name: idx_ensembl_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_ensembl_id ON ensembl_gene USING btree (ensembl_id);
+
+
+--
+-- Name: idx_entity_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_entity_id ON sample USING btree (entity_id);
+
+
+--
+-- Name: idx_gene_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_gene_id ON ensembl_gene USING btree (gene_id);
+
+
+--
+-- Name: idx_geneid; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_geneid ON gene USING btree (geneid);
+
+
+--
+-- Name: idx_genesymbol; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_genesymbol ON consequence USING btree (genesymbol);
+
+
+--
+-- Name: idx_rg; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg ON ensembl USING btree (referencegenome_id);
+
+
+--
+-- Name: idx_rg_build; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg_build ON referencegenome USING btree (build);
+
+
+--
+-- Name: idx_sample_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_id ON sample USING btree (identifier);
+
+
+--
+-- Name: idx_sample_variant; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_variant ON sample_variant USING btree (sample_id, variant_id);
+
+
+--
+-- Name: idx_start; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_start ON variant USING btree (start);
+
+
+--
+-- Name: idx_variant_sample; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_variant_sample ON sample_variant USING btree (variant_id, sample_id);
+
+
+--
+-- Name: rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX rg_unique ON referencegenome USING btree (source, build, version);
+
+
+--
+-- Name: sample_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_unique ON sample USING btree (identifier, cancerentity, entity_id);
+
+--
+-- Name: project_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX project_unique ON project USING btree (identifier);
+
+--
+-- Name: entity_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX entity_unique ON entity USING btree (identifier, project_id);
+
+--
+-- Name: sample_variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_variant_unique ON sample_variant USING btree (sample_id, variant_id, vcfinfo_id, genotype_id);
+
+
+--
+-- Name: variant_rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_rg_unique ON referencegenome_variant USING btree (referencegenome_id, variant_id);
+
+
+--
+-- Name: variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variant_unique ON variant USING btree (chr, start, "end", ref, obs, somatic, databaseidentifier);
+
+
+--
+-- Name: variant_vc_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_vc_unique ON variantcaller_variant USING btree (variant_id, variantcaller_id);
+
+
+--
+-- Name: variantcaller_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variantcaller_unique ON variantcaller USING btree (name, version, doi);
+
+
+--
+-- Name: vcfinfo_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX vcfinfo_unique ON vcfinfo USING btree (ancestralallele, allelecount, allelefrequency, numberalleles, basequality, cigar, dbsnp, hapmaptwo, hapmapthree, thousandgenomes, combineddepth, endpos, rms, mqzero, strandbias, numbersamples, somatic, validated);
+
+-- CREATE UNIQUE INDEX variant_consequence_unique ON variant_consequence USING btree (variant_id, consequence_id);
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_annotationsoftware_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_annotationsoftware_id_fkey FOREIGN KEY (annotationsoftware_id) REFERENCES annotationsoftware(id) NOT VALID;
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_ensembl_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_ensembl_id_fkey FOREIGN KEY (ensembl_id) REFERENCES ensembl(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: ensembl ensembl_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: entity entity_project_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_project_id_fkey FOREIGN KEY (project_id) REFERENCES project(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample sample_entity_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_entity_id_fkey FOREIGN KEY (entity_id) REFERENCES entity(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_genotype_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_genotype_id_fkey FOREIGN KEY (genotype_id) REFERENCES genotype(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_sample_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_sample_id_fkey FOREIGN KEY (sample_id) REFERENCES sample(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_vcfinfo_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_vcfinfo_id_fkey FOREIGN KEY (vcfinfo_id) REFERENCES vcfinfo(id) NOT VALID;
+
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variantcaller_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variantcaller_id_fkey FOREIGN KEY (variantcaller_id) REFERENCES variantcaller(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- PostgreSQL database dump complete
+--
diff --git a/models/V2021__transaction-db-postgres.sql b/models/V2021__transaction-db-postgres.sql
new file mode 100644
index 0000000..b01f04c
--- /dev/null
+++ b/models/V2021__transaction-db-postgres.sql
@@ -0,0 +1,26 @@
+--
+-- Variantstore PostgreSQL transaction database
+--
+
+CREATE SCHEMA IF NOT EXISTS transactions;
+
+SET SCHEMA 'transactions';
+
+--
+-- Name: transaction_status; Type: TABLE; Schema: transactions;
+--
+
+CREATE TABLE transactions.transaction_status (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying,
+                         file_name character varying,
+                         file_size float,
+                         status character varying
+);
+
+--
+-- Name: transaction_status transaction_status_pkey; Type: CONSTRAINT; Schema: transactions;
+--
+
+ALTER TABLE ONLY transactions.transaction_status
+    ADD CONSTRAINT transaction_status_pkey PRIMARY KEY (id);
diff --git a/models/oncostore-model-postgresql-manual.sql b/models/oncostore-model-postgresql-manual.sql
deleted file mode 100644
index a0c3c41..0000000
--- a/models/oncostore-model-postgresql-manual.sql
+++ /dev/null
@@ -1,476 +0,0 @@
-/*
-Manual conversion of MariaDB database scheme of Version 
--- Wed Nov  6 09:03:31 2019
--- Model: New Model    Version: 1.0
-*/
---
-/*
-Creation of this model:
--- Thu Dec 11
--- Version: 0.1
-*/
-
-/*
-The database should be created using:
-WITH ENCODING 'UTF8'
-
-we should not use 'name' as a field name -> https://stackoverflow.com/questions/8416017/is-name-a-special-keyword-in-postgresql
-we should not use 'end' as a field name -> reserved keyword -> best to avoid them -> https://stackoverflow.com/questions/10891368/postgres-table-column-name-restrictions
-
-There is no TINYTEXT in postgresql -> we replace it with VARCHAR(255)
-There is no TINYINT (1 byte) in postgresql -> we place it with SMALLINT (2 bytes)
-    It is however possible to use the extension pguint (https://github.com/petere/pguint), which provides
-        int1 (signed 8-bit integer)
-        uint1 (unsigned 8-bit integer)
-*/
-
-
--- -----------------------------------------------------
--- Schema oncostore
--- -----------------------------------------------------
-DROP SCHEMA IF EXISTS oncostore;
-
-
--- -----------------------------------------------------
--- Schema oncostore
--- -----------------------------------------------------
-CREATE SCHEMA IF NOT EXISTS oncostore;
--- We likely don't need access to the public scheme anymore, so we drop it
-SET search_path TO oncostore;
-
--- -----------------------------------------------------
--- Table `oncostore`.`Gene`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Gene;
-
-CREATE TABLE IF NOT EXISTS oncostore.Gene (
-    id SERIAL PRIMARY KEY,
-    symbol VARCHAR(25),
-    geneName VARCHAR(45),
-    biotype VARCHAR(45),
-    chr VARCHAR(15),
-    geneStart BIGINT,
-    geneEnd BIGINT,
-    synonyms VARCHAR(45),
-    geneId VARCHAR(45),
-    description VARCHAR(255),
-    strand VARCHAR(1),
-    version INTEGER
-);
-CREATE UNIQUE INDEX gene_idx_UNIQUE ON oncostore.Gene (
-    symbol ASC,
-    geneName ASC,
-    biotype ASC,  
-    chr ASC,
-    geneStart ASC,
-    geneEnd ASC,
-    synonyms ASC,
-    geneId ASC,
-    description ASC,
-    strand ASC,
-    version ASC
-);
-
-
--- -----------------------------------------------------
--- Table `oncostore`.`Variant`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Variant;
-
-CREATE TABLE IF NOT EXISTS oncostore.Variant (
-    id SERIAL PRIMARY KEY,
-    chr VARCHAR(15) NOT NULL,
-    variantStart BIGINT NOT NULL,
-    variantEnd BIGINT NOT NULL,
-    ref VARCHAR(255) NOT NULL,
-    obs VARCHAR(255) NOT NULL,
-    isSomatic SMALLINT NOT NULL,
-    uuid VARCHAR(36) NOT NULL
-);
-CREATE UNIQUE INDEX variant_idx_UNIQUE ON oncostore.Variant (
-    chr ASC,
-    variantStart ASC,
-    variantEnd ASC,
-    ref ASC,
-    obs ASC,
-    isSomatic ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Consequence`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Consequence;
-
-CREATE TABLE IF NOT EXISTS oncostore.Consequence (
-    id SERIAL PRIMARY KEY,
-    codingChange VARCHAR(128),
-    aaChange VARCHAR(60),
-    aaStart INTEGER,
-    aaEND INTEGER,
-    type VARCHAR(128) NOT NULL,
-    impact VARCHAR(25) NOT NULL,
-    strand SMALLINT,
-    transcriptID VARCHAR(128) NOT NULL,
-    transcriptVersion INTEGER,
-    canonical SMALLINT,
-    bioType VARCHAR(45) NOT NULL,
-    refSeqID VARCHAR(45)
-);
-CREATE UNIQUE INDEX consequence_idx_UNIQUE ON oncostore.Consequence (
-    codingChange ASC,
-    aaChange ASC,
-    aaStart ASC,
-    aaEnd ASC,
-    type ASC,
-    impact ASC,
-    strand ASC,
-    transcriptID ASC,
-    transcriptVersion ASC,
-    canonical ASC,
-    biotype ASC,
-    refSeqID ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`ReferenceGenome`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.ReferenceGenome;
-
-CREATE TABLE IF NOT EXISTS oncostore.ReferenceGenome (
-    id SERIAL PRIMARY KEY,
-    source VARCHAR(45),
-    build VARCHAR(45),
-    version VARCHAR(45)
-);
-CREATE UNIQUE INDEX reference_genome_idx_UNIQUE ON oncostore.ReferenceGenome (
-    source ASC,
-    build ASC,
-    version ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`AnnotationSoftware`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.AnnotationSoftware;
-
-CREATE TABLE IF NOT EXISTS oncostore.AnnotationSoftware (
-    id SERIAL PRIMARY KEY,
-    annotationSoftwareName VARCHAR(45) NOT NULL,
-    version VARCHAR(15) NOT NULL,
-    DOI VARCHAR(30) NOT NULL
-);
-CREATE UNIQUE INDEX annotation_software_idx_UNIQUE ON oncostore.AnnotationSoftware (
-    annotationSoftwareName ASC,
-    version ASC,
-    DOI ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Project`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Project;
-
-CREATE TABLE IF NOT EXISTS oncostore.Project (
-    id VARCHAR(15) NOT NULL PRIMARY KEY
-);
-CREATE UNIQUE INDEX project_id_UNIQUE ON oncostore.Project (
-    id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Entity`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Entity;
-
-CREATE TABLE IF NOT EXISTS oncostore.Entity (
-    id VARCHAR(15) NOT NULL PRIMARY KEY,
-    Project_id VARCHAR(15),
-    CONSTRAINT fk_Entity_Project
-        FOREIGN KEY (Project_id)
-        REFERENCES oncostore.Project (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX entity_project_id ON oncostore.Entity (
-    Project_id ASC
-);
-CREATE UNIQUE INDEX entity_id_UNIQUE ON oncostore.Entity (
-    id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`VariantCaller`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.VariantCaller;
-
-CREATE TABLE IF NOT EXISTS oncostore.VariantCaller (
-    id SERIAL PRIMARY KEY,
-    variantCallerName VARCHAR(45) NOT NULL,
-    version VARCHAR(15) NOT NULL,
-    DOI VARCHAR(30) NOT NULL
-);
-CREATE UNIQUE INDEX variant_caller_idx_UNIQUE ON oncostore.VariantCaller (
-    variantCallerName ASC,
-    version ASC,
-    DOI ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Sample`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Sample;
-
-CREATE TABLE IF NOT EXISTS oncostore.Sample (
-    qbicID VARCHAR(15) NOT NULL PRIMARY KEY,
-    Entity_id VARCHAR(15),
-    cancerEntity VARCHAR(45),
-    CONSTRAINT fk_Sample_Entity
-        FOREIGN KEY (Entity_id)
-        REFERENCES oncostore.Entity (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Sample_Entity_idx ON oncostore.Sample (
-    Entity_id ASC
-);
-CREATE UNIQUE INDEX fk_Sample_Entity_UNIQUE ON oncostore.Sample (
-    qbicID ASC,
-    Entity_id ASC,
-    cancerEntity ASC
-);
-CREATE UNIQUE INDEX qbicID_UNIQUE ON oncostore.Sample (
-    qbicID ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`AnnotationSoftware_has_Consequence`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.AnnotationSoftware_has_Consequence;
-
-CREATE TABLE IF NOT EXISTS oncostore.AnnotationSoftware_has_Consequence (
-    AnnotationSoftware_id INTEGER NOT NULL,
-    Consequence_id INTEGER NOT NULL,
-    PRIMARY KEY (AnnotationSoftware_id, Consequence_id),
-    CONSTRAINT fk_AnnotationSoftware_has_Consequence_AnnotationSoftware
-        FOREIGN KEY (AnnotationSoftware_id)
-        REFERENCES oncostore.AnnotationSoftware (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_AnnotationSoftware_has_Consequence_Consequence
-        FOREIGN KEY (Consequence_id)
-        REFERENCES oncostore.Consequence (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_AnnotationSoftware_has_Consequence_Consequence_idx ON oncostore.AnnotationSoftware_has_Consequence (
-    Consequence_id ASC
-);
-CREATE INDEX fk_AnnotationSoftware_has_Consequence_AnnotationSoftware_idx ON oncostore.AnnotationSoftware_has_Consequence (
-    AnnotationSoftware_id ASC
-);
-CREATE UNIQUE INDEX fk_AnnotationSoftware_has_Consequence_Consequence_UNIQUE ON oncostore.AnnotationSoftware_has_Consequence (
-    AnnotationSoftware_id ASC,
-    Consequence_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Variant_has_ReferenceGenome`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Variant_has_ReferenceGenome;
-
-CREATE TABLE IF NOT EXISTS oncostore.Variant_has_ReferenceGenome (
-    Variant_id INTEGER NOT NULL,
-    ReferenceGenome_id INTEGER NOT NULL,
-    PRIMARY KEY (Variant_id, ReferenceGenome_id),
-    CONSTRAINT fk_Variant_has_ReferenceGenome_Variant
-        FOREIGN KEY (Variant_id)
-        REFERENCES oncostore.Variant(id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Variant_has_ReferenceGenome_ReferenceGenome
-        FOREIGN KEY (ReferenceGenome_id)
-        REFERENCES oncostore.ReferenceGenome (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Variant_has_ReferenceGenome_ReferenceGenome_idx ON oncostore.Variant_has_ReferenceGenome (
-    ReferenceGenome_id ASC
-);
-CREATE INDEX fk_Variant_has_ReferenceGenome_Variant_idx ON oncostore.Variant_has_ReferenceGenome (
-    Variant_id ASC
-);
-CREATE UNIQUE INDEX fk_Variant_has_ReferenceGenome_ReferenceGenome_Variant_idx_UNIQUE ON oncostore.Variant_has_ReferenceGenome (
-    Variant_id ASC,
-    ReferenceGenome_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Variant_has_Consequence`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Variant_has_Consequence;
-
-CREATE TABLE IF NOT EXISTS oncostore.Variant_has_Consequence (
-    Variant_id INTEGER NOT NULL,
-    Consequence_id INTEGER NOT NULL,
-    PRIMARY KEY (Variant_id, Consequence_id),
-    CONSTRAINT fk_Variant_has_Consequence_Variant
-        FOREIGN KEY (Variant_id)
-        REFERENCES oncostore.Variant (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Variant_has_Consequence_Consequence 
-        FOREIGN KEY (Consequence_id)
-        REFERENCES oncostore.Consequence (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Variant_has_Consequence_Consequence_idx ON oncostore.Variant_has_Consequence (
-    Consequence_id ASC
-);
-CREATE INDEX fk_Variant_has_Consequence_Variant ON oncostore.Variant_has_Consequence (
-    Variant_id ASC
-);
-CREATE UNIQUE INDEX fk_Variant_has_Consequence_Consequence_Variant_Consequence_idx_UNIQUE ON oncostore.Variant_has_Consequence (
-    Variant_id ASC,
-    Consequence_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Variant_has_VariantCaller`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Variant_has_VariantCaller;
-
-CREATE TABLE IF NOT EXISTS oncostore.Variant_has_VariantCaller (
-    Variant_id INTEGER NOT NULL,
-    VariantCaller_id INTEGER NOT NULL,
-    PRIMARY KEY (Variant_id, VariantCaller_id),
-    CONSTRAINT fk_Variant_has_VariantCaller_Variant
-        FOREIGN KEY (Variant_id)
-        REFERENCES oncostore.Variant (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Variant_has_VariantCaller_VariantCaller
-        FOREIGN KEY (VariantCaller_id)
-        REFERENCES oncostore.VariantCaller (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Variant_has_VariantCaller_VariantCaller_idx ON oncostore.Variant_has_VariantCaller (
-    VariantCaller_id ASC
-);
-CREATE INDEX fk_Variant_has_VariantCaller_Variant_idx ON oncostore.Variant_has_VariantCaller (
-    Variant_id ASC
-);
-CREATE UNIQUE INDEX fk_Variant_has_VariantCaller_Variant_VariantCaller_idx_UNIQUE ON oncostore.Variant_has_VariantCaller (
-    Variant_id ASC,
-    VariantCaller_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Sample_has_Variant`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Sample_has_Variant;
-
-CREATE TABLE IF NOT EXISTS oncostore.Sample_has_Variant (
-    Sample_qbicID VARCHAR(15) NOT NULL,
-    Variant_id INTEGER NOT NULL,
-    PRIMARY KEY (Sample_qbicID, Variant_id),
-    CONSTRAINT fk_Sample_has_Variant_Sample
-        FOREIGN KEY (Sample_qbicID)
-        REFERENCES oncostore.Sample (qbicID)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Sample_has_Variant_Variant
-        FOREIGN KEY (Variant_id)
-        REFERENCES oncostore.Variant (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Sample_has_Variant_Variant_idx ON oncostore.Sample_has_Variant(
-    Variant_id ASC
-);
-CREATE INDEX fk_Sample_has_Variant_Sample_idx ON oncostore.Sample_has_Variant (
-    Sample_qbicID ASC
-);
-CREATE UNIQUE INDEX fk_Sample_has_Variant_Sample_Variant ON oncostore.Sample_has_Variant (
-    Sample_qbicID ASC,
-    Variant_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Ensembl`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Ensembl;
-
-CREATE TABLE IF NOT EXISTS oncostore.Ensembl (
-    id SERIAL PRIMARY KEY,
-    version INTEGER NOT NULL,
-    date VARCHAR(45),
-    ReferenceGenome_id INTEGER NOT NULL,
-    CONSTRAINT fk_Ensembl_ReferenceGenome 
-        FOREIGN KEY (ReferenceGenome_id)
-        REFERENCES oncostore.ReferenceGenome (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Ensembl_ReferenceGenome_idx ON oncostore.Ensembl (
-    ReferenceGenome_id ASC
-);
-CREATE UNIQUE INDEX fk_Ensembl_ReferenceGenome_idx_UNIQUE ON oncostore.Ensembl (
-    version ASC,
-    date ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Consequence_has_Gene`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Consequence_has_Gene;
-
-CREATE TABLE IF NOT EXISTS oncostore.Consequence_has_Gene (
-    Consequence_id INTEGER NOT NULL,
-    Gene_id INTEGER NOT NULL,
-    PRIMARY KEY (Consequence_id, Gene_id),
-    CONSTRAINT fk_Consequence_has_Gene_Consequence 
-        FOREIGN KEY (Consequence_id)
-        REFERENCES oncostore.Consequence (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Consequence_has_Gene_Gene 
-        FOREIGN KEY (Gene_id)
-        REFERENCES oncostore.Gene (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Consequence_has_Gene_Gene ON oncostore.Consequence_has_Gene (
-    Gene_id ASC
-);
-CREATE INDEX fk_Consequence_has_Gene_Consequence ON oncostore.Consequence_has_Gene (
-    Consequence_id ASC
-);
-
--- -----------------------------------------------------
--- Table `oncostore`.`Ensembl_has_Gene`
--- -----------------------------------------------------
-DROP TABLE IF EXISTS oncostore.Ensembl_has_Gene;
-
-CREATE TABLE IF NOT EXISTS oncostore.Ensembl_has_Gene (
-    Ensembl_id INTEGER NOT NULL,
-    Gene_id INTEGER NOT NULL,
-    PRIMARY KEY (Ensembl_id, Gene_id),
-    CONSTRAINT fk_Ensembl_has_Gene_Ensembl 
-        FOREIGN KEY (Ensembl_id)
-        REFERENCES oncostore.Ensembl (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION,
-    CONSTRAINT fk_Ensembl_has_Gene_Gene 
-        FOREIGN KEY (Gene_id)
-        REFERENCES oncostore.Gene (id)
-        ON DELETE NO ACTION
-        ON UPDATE NO ACTION
-);
-CREATE INDEX fk_Ensembl_has_Gene_Gene_idx ON oncostore.Ensembl_has_Gene (
-    Gene_id ASC
-);
-CREATE INDEX fk_Ensembl_has_Gene_Ensembl_idx ON oncostore.Ensembl_has_Gene (
-    Ensembl_id ASC
-);
diff --git a/pom.xml b/pom.xml
index f55aa1d..1d969ae 100644
--- a/pom.xml
+++ b/pom.xml
@@ -5,22 +5,31 @@
     <artifactId>variantstore</artifactId>
     <groupId>life.qbic</groupId>
     <name>Variantstore</name>
-    <version>1.0.1</version>
+    <version>1.1.0</version>
     <description>Variantstore is a service to store and manage genomic variants</description>
+
+    <parent>
+        <groupId>io.micronaut</groupId>
+        <artifactId>micronaut-parent</artifactId>
+        <version>3.7.4</version>
+    </parent>
+
     <properties>
-        <jdk.version>1.8</jdk.version>
+        <jdk.version>11</jdk.version>
         <swagger.version>2.1.0</swagger.version>
-        <micronaut.version>1.3.6</micronaut.version>
-        <micronaut.data.version>1.1.3</micronaut.data.version>
-        <groovy.version>2.5.14</groovy.version>
+        <micronaut.version>3.7.4</micronaut.version>
+        <micronaut.runtime>netty</micronaut.runtime>
         <maven.compiler.target>${jdk.version}</maven.compiler.target>
         <maven.compiler.source>${jdk.version}</maven.compiler.source>
+        <micronaut.data.version>3.8.1</micronaut.data.version>
+        <groovyVersion>3.0.9</groovyVersion>
         <project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
         <project.reporting.outputEncoding>UTF-8</project.reporting.outputEncoding>
         <exec.mainClass>life.qbic.variantstore.Variantstore</exec.mainClass>
         <maven-surefire-plugin.version>2.22.2</maven-surefire-plugin.version>
         <maven-failsafe-plugin.version>2.22.2</maven-failsafe-plugin.version>
     </properties>
+
     <pluginRepositories>
         <pluginRepository>
             <id>maven-central-plugins</id>
@@ -39,6 +48,7 @@
             <url>https://qbic-repo.qbic.uni-tuebingen.de/repository/maven-releases</url>
         </pluginRepository>
     </pluginRepositories>
+
     <repositories>
         <repository>
             <releases>
@@ -84,52 +94,35 @@
             <url>https://qbic-repo.am10.uni-tuebingen.de/repository/maven-releases</url>
         </repository>
     </repositories>
-    <dependencyManagement>
-        <dependencies>
-            <dependency>
-                <groupId>org.codehaus.groovy</groupId>
-                <artifactId>groovy-bom</artifactId>
-                <version>${groovy.version}</version>
-                <type>pom</type>
-                <scope>import</scope>
-            </dependency>
-            <dependency>
-                <groupId>org.spockframework</groupId>
-                <artifactId>spock-bom</artifactId>
-                <version>1.3-groovy-2.5</version>
-                <type>pom</type>
-                <scope>import</scope>
-            </dependency>
-            <dependency>
-                <groupId>io.micronaut</groupId>
-                <artifactId>micronaut-bom</artifactId>
-                <version>${micronaut.version}</version>
-                <type>pom</type>
-                <scope>import</scope>
-            </dependency>
-        </dependencies>
-    </dependencyManagement>
+
     <dependencies>
+        <dependency>
+            <groupId>io.micronaut</groupId>
+            <artifactId>micronaut-inject-groovy</artifactId>
+            <scope>provided</scope>
+        </dependency>
         <dependency>
             <groupId>org.codehaus.groovy</groupId>
             <artifactId>groovy</artifactId>
-            <version>${groovy.version}</version>
+            <version>${groovyVersion}</version>
+            <scope>compile</scope>
         </dependency>
         <dependency>
             <groupId>org.codehaus.groovy</groupId>
             <artifactId>groovy-dateutil</artifactId>
-            <version>${groovy.version}</version>
         </dependency>
         <dependency>
             <groupId>org.codehaus.groovy</groupId>
             <artifactId>groovy-json</artifactId>
-            <version>${groovy.version}</version>
+        </dependency>
+        <dependency>
+            <groupId>org.codehaus.groovy</groupId>
+            <artifactId>groovy-sql</artifactId>
         </dependency>
         <!-- dependencies used for unit tests (spock) -->
         <dependency>
             <groupId>org.spockframework</groupId>
             <artifactId>spock-core</artifactId>
-            <version>1.3-groovy-2.5</version>
             <scope>test</scope>
             <exclusions>
                 <exclusion>
@@ -141,50 +134,26 @@
         <dependency>
             <groupId>org.codehaus.groovy</groupId>
             <artifactId>groovy-test</artifactId>
-            <version>${groovy.version}</version>
         </dependency>
         <dependency>
-            <groupId>io.micronaut</groupId>
+            <groupId>io.micronaut.security</groupId>
             <artifactId>micronaut-security</artifactId>
-        </dependency>
-        <dependency>
-            <groupId>org.codehaus.groovy</groupId>
-            <artifactId>groovy-all</artifactId>
-            <version>${groovy.version}</version>
-            <type>pom</type>
-            <exclusions>
-                <exclusion>
-                    <groupId>org.codehaus.groovy</groupId>
-                    <artifactId>groovy-testng</artifactId>
-                </exclusion>
-                <exclusion>
-                    <groupId>org.codehaus.groovy</groupId>
-                    <artifactId>groovy-test-junit5</artifactId>
-                </exclusion>
-            </exclusions>
+            <scope>compile</scope>
         </dependency>
         <dependency>
             <groupId>io.micronaut</groupId>
             <artifactId>micronaut-inject</artifactId>
-            <version>${micronaut.version}</version>
             <scope>compile</scope>
         </dependency>
-        <dependency>
-            <groupId>io.micronaut</groupId>
-            <artifactId>micronaut-inject-groovy</artifactId>
-            <version>${micronaut.version}</version>
-            <scope>provided</scope>
-        </dependency>
         <dependency>
             <groupId>io.micronaut</groupId>
             <artifactId>micronaut-validation</artifactId>
-            <version>${micronaut.version}</version>
             <scope>compile</scope>
         </dependency>
         <dependency>
             <groupId>jakarta.persistence</groupId>
             <artifactId>jakarta.persistence-api</artifactId>
-            <version>2.2.3</version>
+            <version>3.1.0</version>
         </dependency>
         <dependency>
             <groupId>io.micronaut</groupId>
@@ -199,141 +168,184 @@
             <scope>compile</scope>
         </dependency>
         <dependency>
-            <groupId>life.qbic</groupId>
-            <artifactId>micronaut-utils-lib</artifactId>
-            <version>1.1.0</version>
+            <groupId>io.micronaut.groovy</groupId>
+            <artifactId>micronaut-runtime-groovy</artifactId>
+            <scope>compile</scope>
         </dependency>
         <dependency>
-            <groupId>io.micronaut</groupId>
-            <artifactId>micronaut-runtime-groovy</artifactId>
+            <groupId>io.micronaut.views</groupId>
+            <artifactId>micronaut-views-thymeleaf</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.micronaut.flyway</groupId>
+            <artifactId>micronaut-flyway</artifactId>
             <scope>compile</scope>
         </dependency>
+        <!-- https://mvnrepository.com/artifact/org.flywaydb/flyway-mysql -->
+        <dependency>
+            <groupId>org.flywaydb</groupId>
+            <artifactId>flyway-mysql</artifactId>
+            <version>8.5.13</version>
+        </dependency>
         <dependency>
             <groupId>org.mariadb.jdbc</groupId>
             <artifactId>mariadb-java-client</artifactId>
-            <version>2.7.1</version>
+            <version>3.0.6</version>
             <scope>runtime</scope>
         </dependency>
         <dependency>
-            <groupId>com.h2database</groupId>
-            <artifactId>h2</artifactId>
+            <groupId>org.postgresql</groupId>
+            <artifactId>postgresql</artifactId>
+            <version>42.5.1</version>
             <scope>runtime</scope>
         </dependency>
         <dependency>
             <groupId>ch.qos.logback</groupId>
             <artifactId>logback-classic</artifactId>
-            <version>1.2.3</version>
             <scope>runtime</scope>
         </dependency>
         <dependency>
             <groupId>io.micronaut.data</groupId>
             <artifactId>micronaut-data-processor</artifactId>
-            <version>${micronaut.data.version}</version>
-            <scope>compile</scope>
+            <scope>provided</scope>
         </dependency>
         <dependency>
             <groupId>io.micronaut.data</groupId>
             <artifactId>micronaut-data-jdbc</artifactId>
-            <version>${micronaut.data.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>io.micronaut.data</groupId>
-            <artifactId>micronaut-data-model</artifactId>
-            <version>${micronaut.data.version}</version>
             <scope>compile</scope>
         </dependency>
         <dependency>
-            <groupId>io.micronaut.data</groupId>
-            <artifactId>micronaut-data-runtime</artifactId>
-            <version>${micronaut.data.version}</version>
-            <scope>compile</scope>
-        </dependency>
-        <dependency>
-            <groupId>io.micronaut.configuration</groupId>
+            <groupId>io.micronaut.sql</groupId>
             <artifactId>micronaut-jdbc-tomcat</artifactId>
-            <version>2.2.6</version>
             <scope>compile</scope>
         </dependency>
         <!-- Micronaut test dependencies -->
-        <dependency>
-            <groupId>io.micronaut.test</groupId>
-            <artifactId>micronaut-test-core</artifactId>
-            <scope>test</scope>
-            <version>1.2.0</version>
-        </dependency>
         <dependency>
             <groupId>io.micronaut.test</groupId>
             <artifactId>micronaut-test-spock</artifactId>
             <scope>test</scope>
-            <version>1.2.0</version>
         </dependency>
         <dependency>
-            <groupId>org.testcontainers</groupId>
+           <groupId>org.testcontainers</groupId>
             <artifactId>spock</artifactId>
-            <version>1.14.3</version>
             <scope>test</scope>
         </dependency>
         <!-- https://mvnrepository.com/artifact/org.testcontainers/mariadb -->
         <dependency>
             <groupId>org.testcontainers</groupId>
             <artifactId>mariadb</artifactId>
-            <version>1.14.3</version>
+            <version>1.17.6</version>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/org.testcontainers/postgresql -->
+        <dependency>
+            <groupId>org.testcontainers</groupId>
+            <artifactId>postgresql</artifactId>
+            <version>1.17.6</version>
+            <scope>test</scope>
         </dependency>
         <!-- Micronaut security dependencies -->
         <dependency>
-            <groupId>io.micronaut</groupId>
+            <groupId>io.micronaut.security</groupId>
             <artifactId>micronaut-security-session</artifactId>
             <scope>compile</scope>
         </dependency>
         <dependency>
-            <groupId>io.micronaut.configuration</groupId>
+            <groupId>io.micronaut.security</groupId>
             <artifactId>micronaut-security-oauth2</artifactId>
             <scope>compile</scope>
-            <version>1.3.1</version>
         </dependency>
         <dependency>
-            <groupId>io.micronaut</groupId>
+            <groupId>io.micronaut.security</groupId>
             <artifactId>micronaut-security-jwt</artifactId>
             <scope>compile</scope>
         </dependency>
+        <dependency>
+            <groupId>io.micronaut.openapi</groupId>
+            <artifactId>micronaut-openapi</artifactId>
+            <version>4.7.1</version>
+        </dependency>
         <dependency>
             <groupId>io.swagger.core.v3</groupId>
             <artifactId>swagger-annotations</artifactId>
-            <version>2.0.8</version>
-            <scope>compile</scope>
+            <version>2.2.6</version>
+        </dependency>
+        <dependency>
+            <groupId>io.swagger.core.v3</groupId>
+            <artifactId>swagger-models</artifactId>
+            <version>2.2.6</version>
         </dependency>
         <!-- https://mvnrepository.com/artifact/com.github.samtools/htsjdk -->
         <dependency>
             <groupId>com.github.samtools</groupId>
             <artifactId>htsjdk</artifactId>
-            <version>2.22.0</version>
-        </dependency>
-        <dependency>
-            <groupId>io.micronaut.configuration</groupId>
-            <artifactId>micronaut-openapi</artifactId>
-            <version>1.5.2</version>
-            <scope>compile</scope>
+            <version>3.0.3</version>
         </dependency>
         <!-- https://mvnrepository.com/artifact/ca.uhn.hapi.fhir/hapi-fhir-base -->
         <dependency>
             <groupId>ca.uhn.hapi.fhir</groupId>
             <artifactId>hapi-fhir-base</artifactId>
-            <version>5.0.2</version>
+            <version>6.2.0</version>
         </dependency>
         <dependency>
             <groupId>ca.uhn.hapi.fhir</groupId>
             <artifactId>hapi-fhir-structures-r4</artifactId>
-            <version>5.0.2</version>
+            <version>6.2.0</version>
         </dependency>
         <dependency>
             <groupId>ca.uhn.hapi.fhir</groupId>
             <artifactId>hapi-fhir-validation-resources-r4</artifactId>
-            <version>5.0.2</version>
+            <version>6.2.0</version>
+        </dependency>
+        <dependency>
+            <groupId>org.projectlombok</groupId>
+            <artifactId>lombok</artifactId>
+            <scope>provided</scope>
+        </dependency>
+        <dependency>
+            <groupId>io.micronaut.rxjava3</groupId>
+            <artifactId>micronaut-rxjava3</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.micronaut.rxjava3</groupId>
+            <artifactId>micronaut-rxjava3-http-client</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.micronaut.reactor</groupId>
+            <artifactId>micronaut-reactor</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.micronaut.reactor</groupId>
+            <artifactId>micronaut-reactor-http-client</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>net.datafaker</groupId>
+            <artifactId>datafaker</artifactId>
+            <version>1.5.0</version>
+        </dependency>
+        <dependency>
+            <groupId>org.awaitility</groupId>
+            <artifactId>awaitility-groovy</artifactId>
+            <version>4.2.0</version>
+            <scope>test</scope>
+        </dependency>
+        <!-- https://mvnrepository.com/artifact/org.webjars/bootstrap -->
+        <dependency>
+            <groupId>org.webjars</groupId>
+            <artifactId>bootstrap</artifactId>
+            <version>5.2.2</version>
+        </dependency>
+        <dependency>
+            <groupId>org.webjars</groupId>
+            <artifactId>webjars-locator</artifactId>
+            <version>0.45</version>
         </dependency>
     </dependencies>
     <build>
         <plugins>
+            <plugin>
+                <groupId>io.micronaut.build</groupId>
+                <artifactId>micronaut-maven-plugin</artifactId>
+            </plugin>
             <plugin>
                 <groupId>org.apache.maven.plugins</groupId>
                 <artifactId>maven-site-plugin</artifactId>
@@ -347,18 +359,18 @@
             <plugin>
                 <groupId>org.codehaus.gmavenplus</groupId>
                 <artifactId>gmavenplus-plugin</artifactId>
-                <version>1.12.1</version>
+                <version>1.13.0</version>
                 <executions>
                     <execution>
-                        <id>default</id>
+                        <!--<id>default</id> -->
                         <goals>
                             <goal>addSources</goal>
-                            <goal>addTestSources</goal>
                             <goal>generateStubs</goal>
                             <goal>compile</goal>
+                            <goal>removeStubs</goal>
+                            <goal>addTestSources</goal>
                             <goal>generateTestStubs</goal>
                             <goal>compileTests</goal>
-                            <goal>removeStubs</goal>
                             <goal>removeTestStubs</goal>
                         </goals>
                     </execution>
@@ -429,14 +441,27 @@
             <plugin>
                 <groupId>org.apache.maven.plugins</groupId>
                 <artifactId>maven-compiler-plugin</artifactId>
-                <version>3.8.1</version>
+                <version>3.9.0</version>
                 <configuration>
-                    <fork>true</fork>
                     <compilerArgs>
-                        <arg>-J-Dmicronaut.openapi.views.spec=swagger-ui.enabled=true,swagger-ui.theme=flattop
-                        </arg>
+                        <arg>-Amicronaut.openapi.views.spec=swagger-ui.enabled=true,swagger-ui.theme=flattop</arg>
+                        <arg>-parameters</arg>
                     </compilerArgs>
+                    <fork>true</fork>
                 </configuration>
+                <!--<executions>
+                    <execution>
+                        <id>test-compile</id>
+                        <goals>
+                            <goal>testCompile</goal>
+                        </goals>
+                        <configuration>
+                            <compilerArgs>
+                                <arg>-parameters</arg>
+                            </compilerArgs>
+                        </configuration>
+                    </execution>
+                </executions> -->
             </plugin>
             <plugin>
                 <groupId>org.apache.maven.plugins</groupId>
@@ -553,11 +578,11 @@
                     <targetJdk>${maven.compiler.target}</targetJdk>
                 </configuration>
             </plugin>
-        <plugin>
-            <groupId>life.qbic</groupId>
-            <artifactId>groovydoc-maven-plugin</artifactId>
-            <version>1.0.2</version>
-        </plugin>
+            <plugin>
+                <groupId>life.qbic</groupId>
+                <artifactId>groovydoc-maven-plugin</artifactId>
+                <version>1.0.2</version>
+            </plugin>
         </plugins>
     </build>
     <reporting>
@@ -568,4 +593,4 @@
             </plugin>
         </plugins>
     </reporting>
-</project>
\ No newline at end of file
+</project>
diff --git a/src/main/groovy/life/qbic/variantstore/Variantstore.groovy b/src/main/groovy/life/qbic/variantstore/Variantstore.groovy
index 46a766d..3d1835d 100644
--- a/src/main/groovy/life/qbic/variantstore/Variantstore.groovy
+++ b/src/main/groovy/life/qbic/variantstore/Variantstore.groovy
@@ -1,28 +1,32 @@
 package life.qbic.variantstore
 
 import groovy.transform.CompileStatic
-import groovy.util.logging.Log4j2
 import io.micronaut.runtime.Micronaut
 import io.swagger.v3.oas.annotations.OpenAPIDefinition
 import io.swagger.v3.oas.annotations.info.Contact
 import io.swagger.v3.oas.annotations.info.Info
 import io.swagger.v3.oas.annotations.info.License
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
 @OpenAPIDefinition(
         info = @Info(
                 title = "Variantstore",
-                version = "1.0.1",
+                version = "1.1.0",
                 description = "Variantstore Restful API",
                 license = @License(name = "MIT License", url = "https://opensource.org/licenses/mit-license.php"),
-                contact = @Contact(url = "https://github.com/christopher-mohr", name = "Christopher Mohr", email = "christopher.mohr@uni-tuebingen.de")
+                contact = @Contact(url = "https://github.com/christopher-mohr", name = "Christopher Mohr",
+                        email = "christopher.mohr@uni-tuebingen.de")
         )
 )
 
-@Log4j2
 @CompileStatic
 class Variantstore {
+
+    private static final Logger LOGGER = LoggerFactory.getLogger(Variantstore.class);
+
     static void main(String[] args) {
-        log.info("Variantstore service started.")
-        Micronaut.run(Variantstore.class)
+        LOGGER.info("Variantstore service started.")
+        Micronaut.run(Variantstore.class, args)
     }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/controller/BeaconController.groovy b/src/main/groovy/life/qbic/variantstore/controller/BeaconController.groovy
index 83ed2f8..7d7887b 100644
--- a/src/main/groovy/life/qbic/variantstore/controller/BeaconController.groovy
+++ b/src/main/groovy/life/qbic/variantstore/controller/BeaconController.groovy
@@ -1,6 +1,6 @@
 package life.qbic.variantstore.controller
 
-import groovy.util.logging.Log4j2
+import io.micronaut.core.annotation.NonNull
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.MediaType
 import io.micronaut.http.annotation.Controller
@@ -8,13 +8,17 @@ import io.micronaut.http.annotation.Get
 import io.micronaut.http.annotation.QueryValue
 import io.micronaut.security.annotation.Secured
 import io.micronaut.security.rules.SecurityRule
+import io.micronaut.transaction.annotation.TransactionalAdvice
 import io.swagger.v3.oas.annotations.Operation
 import io.swagger.v3.oas.annotations.media.Content
 import io.swagger.v3.oas.annotations.media.Schema
 import io.swagger.v3.oas.annotations.responses.ApiResponse
 import life.qbic.variantstore.model.BeaconAlleleResponse
 import life.qbic.variantstore.service.VariantstoreService
-import javax.inject.Inject
+import jakarta.inject.Inject
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
+
 import javax.validation.constraints.Pattern
 import javax.validation.constraints.PositiveOrZero
 
@@ -22,16 +26,17 @@ import javax.validation.constraints.PositiveOrZero
  * Controller for Beacon requests
  *
  * Answers the question: "Have you observed this genotype?"
- * A GA4GH Beacon based on the v0.4 specification. Given a position in a chromosome and an alllele, the beacon looks
+ * A GA4GH Beacon based on the v0.4 specification. Given a position in a chromosome and an allele, the beacon looks
  * for matching mutations at that location and returns a response accordingly.
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Controller("/beacon")
 @Secured(SecurityRule.IS_ANONYMOUS)
 class BeaconController {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(BeaconController.class);
+
     /**
      * The variantstore service
      */
@@ -42,28 +47,30 @@ class BeaconController {
         this.service = service
     }
 
+    /**
+     * Request information whether a specific variant is available in the store
+     * @param chromosome the chromosome
+     * @param startPosition the genomic (start) position
+     * @param reference the reference base(s)
+     * @param observed the observed base(s)
+     * @param assemblyId the assembly identifier (reference genome)
+     * @return the beacon allele response
+     */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/query", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Query the Beacon",
             description = "Answers the question: \"Have you observed this genotype?\"",
             tags = "Beacon")
-    @ApiResponse(responseCode = "200", description = "Returns the answer to the specified question", content =
-            @Content(schema = @Schema(implementation = BeaconAlleleResponse.class)))
-    HttpResponse<BeaconAlleleResponse> checkVariant(@Pattern(regexp = '(?:chr)?[1-9]|1[0-9]|2[0-3]|X|Y') @QueryValue String
-                                                            chromosome, @PositiveOrZero @QueryValue BigInteger
-            startPosition,
-                                                    @Pattern(regexp = '[ACTG]+') @QueryValue String reference,
-                                                    @Pattern(regexp = '[ACTG]+') @QueryValue String observed,
-                                                    @QueryValue String assemblyId) {
-        log.info("Beacon request for specified variant.")
-        try {
-            BeaconAlleleResponse response = service.getBeaconAlleleResponse(chromosome, startPosition, reference,
-                    observed, assemblyId)
-            return HttpResponse.ok(response)
-        }
-        catch (Exception e) {
-            //@TODO check for 400 ? (bad request), missing mandatory parameters
-            log.error(e)
-            return HttpResponse.serverError()
-        }
+    @ApiResponse(responseCode = "200", description = "Returns the answer to the specified question",
+            content = @Content(schema = @Schema(implementation = BeaconAlleleResponse.class)))
+    HttpResponse<BeaconAlleleResponse> checkVariant(@NonNull @Pattern(regexp = '(?:chr)?[1-9]|1\\d|2[0-3]|X|Y')
+                                                    @QueryValue String chromosome,
+                                                    @NonNull @PositiveOrZero @QueryValue BigInteger startPosition,
+                                                    @NonNull @Pattern(regexp = '[ACTG]+') @QueryValue String reference,
+                                                    @NonNull @Pattern(regexp = '[ACTG]+') @QueryValue String observed,
+                                                    @NonNull @QueryValue String assemblyId) {
+        LOGGER.info("Beacon request for specified variant.")
+        BeaconAlleleResponse response = service.getBeaconAlleleResponse(chromosome, startPosition, reference, observed, assemblyId)
+        return HttpResponse.ok(response)
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/controller/CaseController.groovy b/src/main/groovy/life/qbic/variantstore/controller/CaseController.groovy
index d962b58..89548de 100644
--- a/src/main/groovy/life/qbic/variantstore/controller/CaseController.groovy
+++ b/src/main/groovy/life/qbic/variantstore/controller/CaseController.groovy
@@ -1,13 +1,14 @@
 package life.qbic.variantstore.controller
 
-import groovy.util.logging.Log4j2
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.MediaType
 import io.micronaut.http.annotation.Controller
 import io.micronaut.http.annotation.Get
 import io.micronaut.http.annotation.PathVariable
+import io.micronaut.http.hateoas.JsonError
 import io.micronaut.security.annotation.Secured
 import io.micronaut.security.rules.SecurityRule
+import io.micronaut.transaction.annotation.TransactionalAdvice
 import io.swagger.v3.oas.annotations.Operation
 import io.swagger.v3.oas.annotations.media.Content
 import io.swagger.v3.oas.annotations.media.Schema
@@ -16,7 +17,9 @@ import life.qbic.variantstore.model.Case
 import life.qbic.variantstore.model.Sample
 import life.qbic.variantstore.service.VariantstoreService
 import life.qbic.variantstore.util.ListingArguments
-import javax.inject.Inject
+import jakarta.inject.Inject
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
 /**
  * Controller for case (patient) requests
@@ -27,11 +30,12 @@ import javax.inject.Inject
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Controller("/cases")
 @Secured(SecurityRule.IS_AUTHENTICATED)
 class CaseController {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(CaseController.class);
+
     /**
      * The variantstore service
      */
@@ -47,29 +51,31 @@ class CaseController {
      * @param identifier the case identifier
      * @return the found case or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/{id}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a case",
             description = "The case with the specified identifier is returned.",
             tags = "Case")
-    @ApiResponse(responseCode = "200", description = "Returns a case", content = @Content(mediaType =
-            "application/json",
-            schema = @Schema(implementation = Sample.class)))
+    @ApiResponse(responseCode = "200", description = "Returns a case", content = @Content(
+            mediaType = "application/json", schema = @Schema(implementation = Sample.class)))
     @ApiResponse(responseCode = "400", description = "Invalid case identifier supplied")
     @ApiResponse(responseCode = "404", description = "Case not found")
     HttpResponse getCase(@PathVariable(name = "id") String identifier) {
-        log.info("Resource request for case: $identifier")
+        LOGGER.info("Resource request for case: $identifier")
         try {
             List<Case> cases = service.getCaseForCaseId(identifier)
-            return cases ? HttpResponse.ok(cases) : HttpResponse.notFound("No case found for given identifier.")
+            JsonError error = new JsonError("No case found for given identifier $identifier.")
+
+            return cases ? HttpResponse.ok(cases) : HttpResponse.notFound(error)
         }
 
         catch (IllegalArgumentException e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.badRequest("Invalid case identifier supplied.")
         }
 
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
@@ -80,22 +86,24 @@ class CaseController {
      * @param args the filter arguments
      * @return The found cases or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "{?args*}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a set of cases",
             description = "The cases matching the supplied properties are returned.",
             tags = "Case")
-    @ApiResponse(responseCode = "200", description = "Returns a set of cases", content = @Content(mediaType =
-            "application/json",
+    @ApiResponse(responseCode = "200", description = "Returns a set of cases", content = @Content(
+            mediaType = "application/json",
             schema = @Schema(implementation = Case.class)))
     @ApiResponse(responseCode = "404", description = "No cases found matching provided attributes")
     HttpResponse getCases(ListingArguments args) {
-        log.info("Resource request for cases with filtering options.")
+        LOGGER.info("Resource request for cases with filtering options.")
         try {
             List<Case> cases = service.getCasesForSpecifiedProperties(args)
-            return cases ? HttpResponse.ok(cases) : HttpResponse.ok([])
+            JsonError error = new JsonError("No cases found for provided attributes.")
+            return cases ? HttpResponse.ok(cases) : HttpResponse.notFound(error)
         } catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/controller/GeneController.groovy b/src/main/groovy/life/qbic/variantstore/controller/GeneController.groovy
index 47c14af..e5b6d27 100644
--- a/src/main/groovy/life/qbic/variantstore/controller/GeneController.groovy
+++ b/src/main/groovy/life/qbic/variantstore/controller/GeneController.groovy
@@ -1,25 +1,28 @@
 package life.qbic.variantstore.controller
 
-import groovy.util.logging.Log4j2
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.MediaType
 import io.micronaut.http.annotation.Controller
 import io.micronaut.http.annotation.Get
 import io.micronaut.http.annotation.PathVariable
 import io.micronaut.http.annotation.Post
+import io.micronaut.http.hateoas.JsonError
 import io.micronaut.http.multipart.CompletedFileUpload
 import io.micronaut.security.annotation.Secured
 import io.micronaut.security.rules.SecurityRule
+import io.micronaut.transaction.annotation.TransactionalAdvice
 import io.swagger.v3.oas.annotations.Operation
 import io.swagger.v3.oas.annotations.media.Content
 import io.swagger.v3.oas.annotations.media.Schema
 import io.swagger.v3.oas.annotations.responses.ApiResponse
+import jakarta.inject.Inject
 import life.qbic.variantstore.model.Gene
 import life.qbic.variantstore.parser.EnsemblParser
 import life.qbic.variantstore.service.VariantstoreService
 import life.qbic.variantstore.util.ListingArguments
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
-import javax.inject.Inject
 import java.nio.file.Files
 import java.nio.file.Path
 import java.nio.file.Paths
@@ -31,11 +34,12 @@ import java.nio.file.Paths
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Controller("/genes")
 @Secured(SecurityRule.IS_AUTHENTICATED)
 class GeneController {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(GeneController.class);
+
     /**
      * The variantstore service
      */
@@ -51,6 +55,7 @@ class GeneController {
      * @param identifier the gene identifier
      * @return The found gene or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/{id}{?args*}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a gene",
             description = "The gene with the specified identifier is returned.",
@@ -62,27 +67,28 @@ class GeneController {
     @ApiResponse(responseCode = "400", description = "Invalid gene identifier supplied")
     @ApiResponse(responseCode = "404", description = "Gene not found")
     HttpResponse getGene(@PathVariable(name="id") String identifier, ListingArguments args) {
-        log.info("Resource request for gene: $identifier")
+        LOGGER.info("Resource request for gene: $identifier")
         try {
-            List<Gene> genes = service.getGeneForGeneId(identifier, args)
-            return genes ? HttpResponse.ok(genes.get(0)) : HttpResponse.notFound("Gene not found.")
+            Set<Gene> genes = service.getGeneForGeneId(identifier, args)
+            JsonError error = new JsonError("No genes found.")
+            return genes ? HttpResponse.ok(genes[0]) : HttpResponse.notFound("Gene not found.").body(error)
         }
         catch (IllegalArgumentException e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.badRequest("Invalid gene identifier supplied.")
         }
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
 
-
     /**
      * Retrieve gene based on filtering options
      * @param args the filter arguments
      * @return the found genes or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Operation(summary = "Request a set of genes",
             description = "The genes matching the supplied properties are returned.",
             tags = "Gene")
@@ -92,41 +98,39 @@ class GeneController {
     @ApiResponse(responseCode = "404", description = "No genes found matching provided attributes")
     @Get(uri = "{?args*}", produces = MediaType.APPLICATION_JSON)
     HttpResponse getGenes(ListingArguments args) {
-        log.info("Resource request for genes with filtering options.")
+        LOGGER.info("Resource request for genes with filtering options.")
         try {
-            List<Gene> genes = service.getGenesForSpecifiedProperties(args)
+            Set<Gene> genes = service.getGenesForSpecifiedProperties(args)
             return genes ? HttpResponse.ok(genes) : HttpResponse.notFound("No genes found matching provided attributes.")
         }
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
 
-
     /**
      * Upload gene information provided as GFF3 file to the store
      * @param args the filter arguments
      * @return 200 OK or 400 Bad Request
      */
+    @TransactionalAdvice('${database.specifier}')
     @Operation(summary = "Upload gene information",
             description = "Upload Ensembl GFF3 file to add gene information to the store.",
             tags = "Gene")
     @Post(uri = "/", consumes = MediaType.MULTIPART_FORM_DATA)
     HttpResponse storeGenes(CompletedFileUpload files) {
         try {
-            log.info("Request for storing gene information.")
-            File tempFile = File.createTempFile(files.getFilename(), "temp");
-            Path path = Paths.get(tempFile.getAbsolutePath());
-            Files.write(path, files.getBytes());
-            //TODO ensembl POJO
+            LOGGER.info("Request for storing gene information.")
+            File tempFile = File.createTempFile(files.getFilename(), "temp")
+            Path path = Paths.get(tempFile.getAbsolutePath())
+            Files.write(path, files.getBytes())
             EnsemblParser ensembl = new EnsemblParser(tempFile)
-            service.storeGeneInformationInStore(ensembl)
-
+            service.storeGeneInformationInStore(ensembl.ensemblContext)
             return HttpResponse.ok("Upload of gene information successful.")
         } catch (IOException exception) {
-            log.error(exception)
-            return HttpResponse.badRequest("Upload of gene information failed.");
+            LOGGER.error(exception)
+            return HttpResponse.badRequest("Upload of gene information failed.")
         }
     }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/controller/ProjectController.groovy b/src/main/groovy/life/qbic/variantstore/controller/ProjectController.groovy
new file mode 100644
index 0000000..2bababa
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/controller/ProjectController.groovy
@@ -0,0 +1,103 @@
+package life.qbic.variantstore.controller
+
+import io.micronaut.http.HttpResponse
+import io.micronaut.http.MediaType
+import io.micronaut.http.annotation.Controller
+import io.micronaut.http.annotation.Get
+import io.micronaut.http.annotation.PathVariable
+import io.micronaut.http.hateoas.JsonError
+import io.micronaut.security.annotation.Secured
+import io.micronaut.security.rules.SecurityRule
+import io.micronaut.transaction.annotation.TransactionalAdvice
+import io.swagger.v3.oas.annotations.Operation
+import io.swagger.v3.oas.annotations.media.Content
+import io.swagger.v3.oas.annotations.media.Schema
+import io.swagger.v3.oas.annotations.responses.ApiResponse
+import jakarta.inject.Inject
+import life.qbic.variantstore.model.Project
+import life.qbic.variantstore.service.VariantstoreService
+import life.qbic.variantstore.util.ListingArguments
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
+
+/**
+ * Controller for Beacon requests
+ *
+ * Answers the question: "Have you observed this genotype?"
+ * A GA4GH Beacon based on the v0.4 specification. Given a position in a chromosome and an allele, the beacon looks
+ * for matching mutations at that location and returns a response accordingly.
+ *
+ * @since: 1.0.0
+ */
+@Controller("/projects")
+@Secured(SecurityRule.IS_ANONYMOUS)
+class ProjectController {
+
+    private static final Logger LOGGER = LoggerFactory.getLogger(ProjectController.class);
+
+    /**
+     * The variantstore service
+     */
+    private final VariantstoreService service
+
+    @Inject
+    ProjectController(VariantstoreService service) {
+        this.service = service
+    }
+
+    /**
+     * Retrieve project by identifier
+     * @param identifier the project identifier
+     * @return the found variant or 404 Not Found
+     */
+    @TransactionalAdvice('${database.specifier}')
+    @Get(uri = "/{id}", produces = MediaType.APPLICATION_JSON)
+    @Operation(summary = "Request a project",
+            description = "The project with the specified identifier is returned.",
+            tags = "Project")
+    @ApiResponse(responseCode = "200", description = "Returns a project", content = @Content(mediaType = "application/json",
+            schema = @Schema(implementation = Project.class)))
+    @ApiResponse(responseCode = "400", description = "Invalid project identifier supplied")
+    @ApiResponse(responseCode = "404", description = "Project not found")
+    HttpResponse getProject(@PathVariable(name = "id") String identifier) {
+        LOGGER.info("Resource request for project: $identifier")
+        try {
+            Optional<Project> project = service.getProjectForProjectId(identifier)
+            JsonError error = new JsonError("Project $identifier not found.")
+            return project.present ? HttpResponse.ok(project.get()) : HttpResponse.notFound("No Project found for given "
+                    + "identifier.").body(error)
+        } catch (IllegalArgumentException e) {
+            LOGGER.error(e)
+            return HttpResponse.badRequest("Invalid project identifier supplied.")
+        } catch (Exception e) {
+            LOGGER.error(e)
+            return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
+        }
+    }
+
+    /**
+     * Retrieve projects based on filtering criteria
+     * @param args the filter arguments
+     * @return the found projects or 404 Not Found
+     */
+    @TransactionalAdvice('${database.specifier}')
+    @Get(uri = "{?args*}", produces = MediaType.APPLICATION_JSON)
+    @Operation(summary = "Request a set of projects",
+            description = "The samples matching the supplied properties are returned.",
+            tags = "Project")
+    @ApiResponse(responseCode = "200", description = "Returns a set of projects", content = @Content(
+            mediaType = "application/json",
+            schema = @Schema(implementation = Project.class)))
+    @ApiResponse(responseCode = "404", description = "No samples found matching provided attributes")
+    HttpResponse getProjects(ListingArguments args){
+        LOGGER.info("Resource request for projects with filtering options.")
+        try {
+            List<Project> projects = service.getProjectsForSpecifiedProperties(args)
+            return projects ? HttpResponse.ok(projects) : HttpResponse.notFound("No projects found matching provided attributes.")
+        }
+        catch (Exception e) {
+            LOGGER.error(e)
+            return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
+        }
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/controller/SampleController.groovy b/src/main/groovy/life/qbic/variantstore/controller/SampleController.groovy
index 82bd609..99cd996 100644
--- a/src/main/groovy/life/qbic/variantstore/controller/SampleController.groovy
+++ b/src/main/groovy/life/qbic/variantstore/controller/SampleController.groovy
@@ -1,13 +1,14 @@
 package life.qbic.variantstore.controller
 
-import groovy.util.logging.Log4j2
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.MediaType
 import io.micronaut.http.annotation.Controller
 import io.micronaut.http.annotation.Get
 import io.micronaut.http.annotation.PathVariable
+import io.micronaut.http.hateoas.JsonError
 import io.micronaut.security.annotation.Secured
 import io.micronaut.security.rules.SecurityRule
+import io.micronaut.transaction.annotation.TransactionalAdvice
 import io.swagger.v3.oas.annotations.Operation
 import io.swagger.v3.oas.annotations.media.Content
 import io.swagger.v3.oas.annotations.media.Schema
@@ -15,7 +16,9 @@ import io.swagger.v3.oas.annotations.responses.ApiResponse
 import life.qbic.variantstore.model.Sample
 import life.qbic.variantstore.service.VariantstoreService
 import life.qbic.variantstore.util.ListingArguments
-import javax.inject.Inject
+import jakarta.inject.Inject
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
 /**
  * Controller for samples requests
@@ -24,11 +27,12 @@ import javax.inject.Inject
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Controller("/samples")
 @Secured(SecurityRule.IS_AUTHENTICATED)
 class SampleController {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(SampleController.class);
+
     /**
      * The variantstore service
      */
@@ -44,6 +48,7 @@ class SampleController {
      * @param identifier the sample identifier
      * @return the found sample or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/{id}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a sample",
             description = "The sample with the specified identifier is returned.",
@@ -55,17 +60,18 @@ class SampleController {
     @ApiResponse(responseCode = "400", description = "Invalid sample identifier supplied")
     @ApiResponse(responseCode = "404", description = "Sample not found")
     HttpResponse getSample(@PathVariable(name="id") String identifier) {
-        log.info("Resource request for sample: $identifier")
+        LOGGER.info("Resource request for sample: $identifier")
         try {
             List<Sample> samples = service.getSampleForSampleId(identifier)
-            return samples ? HttpResponse.ok(samples.get(0)) : HttpResponse.notFound("Sample not found.")
+            JsonError error = new JsonError("No sample found with provided identifier $identifier.")
+            return samples ? HttpResponse.ok(samples.get(0)) : HttpResponse.notFound(error)
         }
         catch (IllegalArgumentException e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.badRequest("Invalid sample identifier supplied.")
         }
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
@@ -75,6 +81,7 @@ class SampleController {
      * @param args the filter arguments
      * @return the found samples or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "{?args*}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a set of samples",
             description = "The samples matching the supplied properties are returned.",
@@ -84,14 +91,15 @@ class SampleController {
             schema = @Schema(implementation = Sample.class)))
     @ApiResponse(responseCode = "404", description = "No samples found matching provided attributes")
     HttpResponse getSamples(ListingArguments args){
-        log.info("Resource request for samples with filtering options.")
+        LOGGER.info("Resource request for samples with filtering options.")
         try {
             List<Sample> samples = service.getSamplesForSpecifiedProperties(args)
-            return samples ? HttpResponse.ok(samples) : HttpResponse.notFound("No samples found matching provided attributes.")
+            JsonError error = new JsonError("No samples found matching provided attributes.")
+            return samples ? HttpResponse.ok(samples) : HttpResponse.notFound(error)
         }
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/controller/StatusViewController.groovy b/src/main/groovy/life/qbic/variantstore/controller/StatusViewController.groovy
new file mode 100644
index 0000000..59a9a0f
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/controller/StatusViewController.groovy
@@ -0,0 +1,45 @@
+package life.qbic.variantstore.controller
+
+import io.micronaut.http.HttpResponse
+import io.micronaut.http.annotation.Controller
+import io.micronaut.http.annotation.Get
+import io.micronaut.management.endpoint.health.HealthEndpoint
+import io.micronaut.management.health.indicator.HealthResult
+import io.micronaut.security.annotation.Secured
+import io.micronaut.security.rules.SecurityRule
+import io.micronaut.views.View
+import io.reactivex.rxjava3.core.Single
+import jakarta.inject.Inject
+
+@Controller("/status")
+@Secured(SecurityRule.IS_ANONYMOUS)
+class StatusViewController {
+
+    @Inject
+    HealthEndpoint healthEndpoint
+
+    @View("home")
+    @Get("/")
+    HttpResponse index() {
+
+        def healthPublisher = healthEndpoint.getHealth(null)
+        HealthResult healthResult = Single.fromPublisher(healthPublisher).blockingGet()
+        def dbKey = healthResult.getDetails()["jdbc"]["details"].keySet()[0]
+
+        Map<String, Object> status = new HashMap<String, Object>()
+        status.put("healthObjects", healthResult["details"])
+        status.put("status", healthResult["status"])
+        status.put("dbstatus", healthResult.getDetails()["jdbc"]["status"])
+        status.put("dbdetails", dbKey)
+        status.put("dbdetailsDb", healthResult.getDetails()["jdbc"]["details"][dbKey]["details"]["database"])
+        status.put("dbdetailsVersion", healthResult.getDetails()["jdbc"]["details"][dbKey]["details"]["version"])
+        status.put("diskstatus", healthResult.getDetails()["diskSpace"]["status"])
+        status.put("diskdetailsTotal", (int) Math.round(healthResult.getDetails()["diskSpace"]["details"]["total"] / (1e6)))
+        status.put("diskdetailsFree", (int) Math.round(healthResult.getDetails()["diskSpace"]["details"]["free"] / (1e6)))
+        status.put("diskdetailsThreshold", (int) Math.round(healthResult.getDetails()["diskSpace"]["details"]["threshold"] / (1e6)))
+        status.put("service", healthResult.getDetails()["service"]["status"])
+        status.put("servicedetails", healthResult.getDetails()["service"]["name"])
+        return HttpResponse.ok(status)
+    }
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/controller/VariantController.groovy b/src/main/groovy/life/qbic/variantstore/controller/VariantController.groovy
index 42b4403..ac1f09d 100644
--- a/src/main/groovy/life/qbic/variantstore/controller/VariantController.groovy
+++ b/src/main/groovy/life/qbic/variantstore/controller/VariantController.groovy
@@ -1,32 +1,36 @@
 package life.qbic.variantstore.controller
 
-import groovy.util.logging.Log4j2
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.MediaType
 import io.micronaut.http.annotation.*
+import io.micronaut.http.hateoas.JsonError
 import io.micronaut.http.multipart.CompletedFileUpload
 import io.micronaut.http.uri.UriBuilder
 import io.micronaut.runtime.server.EmbeddedServer
 import io.micronaut.scheduling.TaskExecutors
 import io.micronaut.security.annotation.Secured
 import io.micronaut.security.rules.SecurityRule
-import io.reactivex.Flowable
-import io.reactivex.schedulers.Schedulers
+import io.micronaut.core.annotation.Nullable
+import io.micronaut.transaction.annotation.TransactionalAdvice
+import io.reactivex.rxjava3.core.Flowable
+import io.reactivex.rxjava3.schedulers.Schedulers
 import io.swagger.v3.oas.annotations.Operation
 import io.swagger.v3.oas.annotations.media.Content
 import io.swagger.v3.oas.annotations.media.Schema
 import io.swagger.v3.oas.annotations.responses.ApiResponse
 import life.qbic.variantstore.model.TransactionStatus
-import life.qbic.variantstore.model.TransactionStatusRepository
+import life.qbic.variantstore.repositories.TransactionStatusRepository
 import life.qbic.variantstore.model.Variant
 import life.qbic.variantstore.service.VariantstoreService
 import life.qbic.variantstore.util.IdValidator
 import life.qbic.variantstore.util.ListingArguments
-
-import javax.annotation.Nullable
-import javax.inject.Inject
-import javax.inject.Named
+import jakarta.inject.Inject
+import jakarta.inject.Named
+import org.reactivestreams.Publisher
+import org.slf4j.Logger;
+import org.slf4j.LoggerFactory
 import java.util.concurrent.ExecutorService
+
 /**
  * Controller for variant requests.
  *
@@ -34,15 +38,16 @@ import java.util.concurrent.ExecutorService
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Controller("/variants")
 @Secured(SecurityRule.IS_AUTHENTICATED)
 class VariantController {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(VariantController.class);
+
     /**
      * The Variantstore service instance
      */
-    private final VariantstoreService service
+    final VariantstoreService service
     /**
      * The executor service instance
      */
@@ -71,27 +76,27 @@ class VariantController {
      * @param identifier the variant identifier
      * @return the found variant or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/{id}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request a variant",
             description = "The variant with the specified identifier is returned.",
             tags = "Variant")
-    @ApiResponse(responseCode = "200", description = "Returns a variant", content = @Content(mediaType =
-            "application/json",
-
+    @ApiResponse(responseCode = "200", description = "Returns a variant", content = @Content(mediaType = "application/json",
             schema = @Schema(implementation = Variant.class)))
     @ApiResponse(responseCode = "400", description = "Invalid variant identifier supplied")
     @ApiResponse(responseCode = "404", description = "Variant not found")
     HttpResponse getVariant(@PathVariable(name = "id") String identifier) {
-        log.info("Resource request for variant: $identifier")
+        LOGGER.info("Resource request for variant: $identifier")
         try {
-            List<Variant> variants = service.getVariantForVariantId(identifier)
-            return variants ? HttpResponse.ok(variants.get(0)) : HttpResponse.notFound("No Variant found for given "
-                    + "identifier.")
+            Set<Variant> variants = service.getVariantForVariantId(identifier) as Set<Variant>
+            JsonError error = new JsonError("No variant found for identifier $identifier.")
+            return variants ? HttpResponse.ok(variants[0]) : HttpResponse.notFound("No Variant found for given "
+                    + "identifier.").body(error)
         } catch (IllegalArgumentException e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.badRequest("Invalid variant identifier supplied.")
         } catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
@@ -107,53 +112,55 @@ class VariantController {
      * @param vcfVersion the Variant Call Format version
      * @return the found variants or 404 Not Found
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "{?args*}{?format,referenceGenome,withConsequences,annotationSoftware,withGenotypes,vcfVersion}", produces = [MediaType.APPLICATION_JSON, MediaType.TEXT_PLAIN])
-    @Operation(summary = "Request a set of variats",
+    @Operation(summary = "Request a set of variants",
             description = "The variants matching the supplied properties are returned.",
             tags = "Variant")
-    @ApiResponse(responseCode = "200", description = "Returns a set of variants", content = @Content(mediaType =
-            "application/json",
+    @ApiResponse(responseCode = "200", description = "Returns a set of variants", content = @Content(mediaType = "application/json",
             schema = @Schema(implementation = Variant.class, type = "object")))
     @ApiResponse(responseCode = "400", description = "Invalid variant identifier supplied")
     @ApiResponse(responseCode = "404", description = "Variant not found")
-    HttpResponse<List<Variant>> getVariants(@Nullable ListingArguments args, @QueryValue @Nullable String format, @QueryValue
-            (defaultValue = "GRCh37") @Nullable String referenceGenome, @QueryValue(defaultValue = "false") @Nullable
-            Boolean withConsequences, @QueryValue(defaultValue = "snpeff") @Nullable String annotationSoftware,
-                                            @QueryValue(defaultValue = "4.3t") @Nullable String annotationSoftwareVersion,
-                                            @QueryValue(defaultValue = "false") @Nullable Boolean withGenotypes, @QueryValue(defaultValue = "4.1") @Nullable String vcfVersion) {
-        log.info("Resource request for variants with filtering options.")
+    HttpResponse<Set<Variant>> getVariants(@Nullable ListingArguments args, @QueryValue @Nullable String format,
+                                           @QueryValue(defaultValue = "GRCh37") @Nullable String referenceGenome,
+                                           @QueryValue(defaultValue = "false") @Nullable Boolean withConsequences,
+                                           @QueryValue(defaultValue = "snpeff") @Nullable String annotationSoftware,
+                                           @QueryValue(defaultValue = "4.3t") @Nullable String annotationSoftwareVersion,
+                                           @QueryValue(defaultValue = "false") @Nullable Boolean withVcfInfo,
+                                           @QueryValue(defaultValue = "false") @Nullable Boolean withGenotypes,
+                                           @QueryValue(defaultValue = "4.1") @Nullable String vcfVersion) {
+        LOGGER.info("Resource request for variants with filtering options.")
         try {
             def variants
             if (format) {
                 if (!IdValidator.isSupportedVariantFormat(format)) {
-                    return HttpResponse.badRequest("Invalid export format specified.") as HttpResponse<List<Variant>>
+                    return HttpResponse.badRequest("Invalid export format specified.") as HttpResponse<Set<Variant>>
                 }
-                variants = service.getVariantsForSpecifiedProperties(args, referenceGenome,
-                        withConsequences, annotationSoftware, true, withGenotypes)
+                variants = service.getVariantsForSpecifiedProperties(args, referenceGenome, withConsequences,
+                        annotationSoftware, withVcfInfo, withGenotypes)
                 def time = new Date().format("yyyy-MM-dd_HH-mm")
 
+                JsonError error = new JsonError("No variants found matching provided attributes.")
+
                 if (format.toUpperCase() == IdValidator.VariantFormats.VCF.toString()) {
                     return variants ? HttpResponse.ok(service.getVcfContentForVariants(variants, withConsequences, withGenotypes,
                             referenceGenome, annotationSoftware, annotationSoftwareVersion, vcfVersion))
                             .header("Content-Disposition", "attachment; filename=variantstore_export_${time}.vcf")
-                            .contentType(MediaType.TEXT_PLAIN_TYPE) : HttpResponse.notFound("No variants found " +
-                            "matching " + "provided attributes.") as HttpResponse<List<Variant>>
+                            .contentType(MediaType.TEXT_PLAIN_TYPE) : HttpResponse.notFound(error) as HttpResponse<List<Variant>>
                 } else {
                     return variants ? HttpResponse.ok(service.getFhirContentForVariants(variants, withConsequences,
                             referenceGenome))
                             .header("Content-Disposition", "attachment; filename=variantstore_export_${time}.json")
-                            .contentType(MediaType.TEXT_PLAIN_TYPE) : HttpResponse.notFound("No variants found " +
-                            "matching " + "provided attributes.") as HttpResponse<List<Variant>>
+                            .contentType(MediaType.TEXT_PLAIN_TYPE) : HttpResponse.notFound(error) as HttpResponse<List<Variant>>
                 }
             }
 
             variants = service.getVariantsForSpecifiedProperties(args, referenceGenome,
                     withConsequences, annotationSoftware, false, withGenotypes)
-            return variants ? HttpResponse.ok(variants) : HttpResponse.notFound("No variants found matching provided " + "" + "" + "" + "attributes.") as HttpResponse<List<Variant>>
+            return variants ? HttpResponse.ok(variants) : HttpResponse.notFound(error) as HttpResponse<List<Variant>>
         }
-
         catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.") as
                     HttpResponse<List<Variant>>
         }
@@ -165,24 +172,27 @@ class VariantController {
      * @param files the provided VCF (or VCF.gz) files containing variants
      * @return 202 Accepted
      */
+    @TransactionalAdvice('${database.specifier}')
     @Operation(summary = "Add variants to the store",
             description = "Upload annotated VCF file(s) and store the contained variants.",
             tags = "Variant")
     @Post(uri = "/", consumes = MediaType.MULTIPART_FORM_DATA)
-    HttpResponse storeVariants(String metadata, Flowable<CompletedFileUpload> files) {
+    HttpResponse storeVariants(String metadata, Publisher<CompletedFileUpload> files) {
         try {
-            log.info("Request for storing variant information.")
+            LOGGER.info("Request for storing variant information.")
             def statusId = UUID.randomUUID().toString()
 
             // build location for response
             def uri = UriBuilder.of("/variants/upload/status/${statusId}").build()
 
-            files.subscribeOn(Schedulers.from(ioExecutorService)).doOnError { throwable -> log.error("Upload of variants failed.") }
+            Flowable.fromPublisher(files)
+                    .subscribeOn(Schedulers.from(ioExecutorService))
+                    .doOnError { throwable -> LOGGER.error("Upload of variants failed.") }
                     .subscribe() { file ->
-                        log.info("Processing file ${file.filename}")
+                        LOGGER.info("Processing file ${file.filename}")
 
                         def newStatus = new TransactionStatus().tap {
-                            uuid = statusId
+                            identifier = statusId
                             fileName = file.filename
                             fileSize = file.size
                             status = life.qbic.variantstore.model.Status.processing
@@ -191,10 +201,11 @@ class VariantController {
                         TransactionStatus transactionStatus = repository.save(newStatus)
                         service.storeVariantsInStore(metadata, file.inputStream, repository, transactionStatus)
                     }
+
             return HttpResponse.accepted(uri)
         } catch (IOException exception) {
-            log.error(exception)
-            return HttpResponse.badRequest("Upload of variants failed.");
+            LOGGER.error(exception)
+            return HttpResponse.badRequest("Upload of variants failed.")
         }
         finally {
             Schedulers.shutdown()
@@ -207,22 +218,24 @@ class VariantController {
      * @param identifier the transaction identifier
      * @return the transaction status
      */
+    @TransactionalAdvice('${database.specifier}')
     @Get(uri = "/upload/status/{id}", produces = MediaType.APPLICATION_JSON)
     @Operation(summary = "Request the variant upload status",
             description = "The status for the requested variant upload is shown.",
             tags = "Variant")
-    @ApiResponse(responseCode = "200", description = "Returns a status", content = @Content(mediaType =
-            "application/json"))
+    @ApiResponse(responseCode = "200", description = "Returns a status", content = @Content(mediaType = "application/json"))
     @ApiResponse(responseCode = "400", description = "Invalid upload identifier supplied")
     @ApiResponse(responseCode = "404", description = "Upload not found")
     HttpResponse getUploadStatus(@PathVariable(name = "id") String identifier) {
         try {
-            return HttpResponse.ok(repository.findAllByUuid(identifier))
+            def searchResult= repository.findByIdentifier(identifier)
+            return searchResult.present ? HttpResponse.ok(searchResult.get()) : HttpResponse.notFound("No transaction found for given "
+                    + "uuid.").body("")
         } catch (IllegalArgumentException e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.badRequest("Invalid upload identifier supplied.")
         } catch (Exception e) {
-            log.error(e)
+            LOGGER.error(e)
             return HttpResponse.serverError("Unexpected error, resource could not be accessed.")
         }
     }
diff --git a/src/main/groovy/life/qbic/variantstore/database/MariaDBVariantstoreStorage.groovy b/src/main/groovy/life/qbic/variantstore/database/MariaDBVariantstoreStorage.groovy
index 21b6938..c0fba25 100644
--- a/src/main/groovy/life/qbic/variantstore/database/MariaDBVariantstoreStorage.groovy
+++ b/src/main/groovy/life/qbic/variantstore/database/MariaDBVariantstoreStorage.groovy
@@ -4,16 +4,20 @@ import groovy.json.JsonSlurper
 import groovy.sql.BatchingPreparedStatementWrapper
 import groovy.sql.GroovyRowResult
 import groovy.sql.Sql
-import groovy.util.logging.Log4j2
-import life.qbic.micronaututils.QBiCDataSource
+import io.micronaut.context.annotation.Requires
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.transaction.annotation.TransactionalAdvice
 import life.qbic.variantstore.model.*
 import life.qbic.variantstore.parser.MetadataContext
 import life.qbic.variantstore.service.VariantstoreStorage
 import life.qbic.variantstore.util.IdValidator
 import life.qbic.variantstore.util.ListingArguments
-import javax.inject.Inject
-import javax.inject.Singleton
-import javax.validation.constraints.NotNull
+import jakarta.inject.*
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
+
+import javax.sql.DataSource
+import javax.transaction.Transactional
 import java.sql.Connection
 import java.sql.PreparedStatement
 import java.sql.ResultSet
@@ -22,19 +26,20 @@ import java.sql.SQLException
 
 /**
  * A VariantstoreStorage implementation.
- *genesymbol
  * This provides an interface to a MariaDB database storing variant information.
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Singleton
+@Requires(property = "database.specifier", value = "variantstore-mariadb")
 class MariaDBVariantstoreStorage implements VariantstoreStorage {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(MariaDBVariantstoreStorage.class);
+
     /**
      * The data source instance
      */
-    QBiCDataSource dataSource
+    DataSource dataSource
 
     /**
      * Predefined queries for inserting db entries in junction tables.
@@ -147,8 +152,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
  = consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_has_consequence
  .annotationsoftware_id INNER JOIN  consequence_has_gene on consequence_has_gene.consequence_id = consequence.id 
  INNER JOIN 
- gene on gene.id=consequence_has_gene.gene_id INNER JOIN sample_has_variant ON variant.id = sample_has_variant
- .variant_id INNER JOIN sample ON 
+ gene on gene.id=consequence_has_gene.gene_id INNER JOIN sample ON 
  sample_has_variant.sample_id = sample.id;"""
     static final selectVariantsWithSampleAndConsequences = """SELECT variant.id as varid, variant.chr as varchr, 
 variant.start as 
@@ -184,11 +188,10 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
  annotationsoftware.id = annotationsoftware_has_consequence.annotationsoftware_id INNER JOIN genotype ON genotype
  .id=sample_has_variant.genotype_id INNER JOIN consequence_has_gene on consequence_has_gene.consequence_id = 
  consequence.id INNER JOIN 
- gene on gene.id=consequence_has_gene.gene_id INNER JOIN sample_has_variant ON variant.id = sample_has_variant
- .variant_id INNER JOIN sample ON sample_has_variant.sample_id = sample.id;"""
+ gene on gene.id=consequence_has_gene.gene_id;"""
 
     @Inject
-    MariaDBVariantstoreStorage(QBiCDataSource dataSource) {
+    MariaDBVariantstoreStorage(@Named("variantstore-mariadb") DataSource dataSource) {
         this.dataSource = dataSource
     }
 
@@ -206,7 +209,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Variant> findVariantsForBeaconResponse(String chromosome, BigInteger start,
+    Set<Variant> findVariantsForBeaconResponse(String chromosome, BigInteger start,
                                                 String reference, String observed, String assemblyId) {
         Sql sql = requestNewConnection()
         try {
@@ -219,6 +222,22 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
         }
     }
 
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Optional<Project> findProjectById(String id) {
+        Sql sql = requestNewConnection()
+        try {
+            def result  = fetchProjectForId(id, sql)
+            return result ? Optional.of(result[0]) : Optional.empty()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch case with identifier $id.", e.fillInStackTrace())
+        } finally {
+            sql.close()
+        }
+    }
+
     /**
      * {@inheritDoc}
      */
@@ -262,7 +281,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Variant> findVariantById(String id) {
+    Set<Variant> findVariantById(String id) {
         if (!IdValidator.isValidUUID(id)) {
             throw new IllegalArgumentException("Invalid variant identifier supplied.")
         }
@@ -281,7 +300,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Gene> findGeneById(String id, ListingArguments args) {
+    Set<Gene> findGeneById(String id, ListingArguments args) {
         Sql sql = requestNewConnection()
         try {
             if (args.getEnsemblVersion().isPresent()) {
@@ -304,7 +323,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Case> findCases(@NotNull ListingArguments args) {
+    List<Case> findCases(@NonNull ListingArguments args) {
         Sql sql = requestNewConnection()
         try {
             if (args.getGene().isPresent()) {
@@ -321,8 +340,8 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
 
             if (args.getChromosome().isPresent() && args.getStartPosition().isPresent() && args.getEndPosition()
                     .isPresent()) {
-                return fetchCasesByChromosomeAndPositionRange(args.getChromosome().get(), args.getStartPosition().get
-                        (), args.getEndPosition().get(), sql)
+                return fetchCasesByChromosomeAndPositionRange(args.getChromosome().get(), args.getStartPosition().get(),
+                        args.getEndPosition().get(), sql)
             }
 
             if (args.getChromosome().isPresent()) {
@@ -341,7 +360,23 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Sample> findSamples(@NotNull ListingArguments args) {
+    List<Project> findProjects(@NonNull ListingArguments args) {
+        Sql sql = requestNewConnection()
+        try {
+            return fetchProjects(sql)
+        }
+        catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch projects.",  e.printStackTrace())
+        } finally {
+        sql.close()
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Sample> findSamples(@NonNull ListingArguments args) {
         Sql sql = requestNewConnection()
         try {
             if (args.getCancerEntity().isPresent()) {
@@ -349,7 +384,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
             }
             return fetchSamples(sql)
         } catch (Exception e) {
-            throw new VariantstoreStorageException("Could not fetch samples.", e.fillInStackTrace())
+            throw new VariantstoreStorageException("Could not fetch samples.",  e.printStackTrace())
         } finally {
             sql.close()
         }
@@ -359,8 +394,8 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    List<Variant> findVariants(@NotNull ListingArguments args, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes) {
+    Set<Variant> findVariants(@NonNull ListingArguments args, String referenceGenome, Boolean withConsequences,
+                               String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes) {
         Sql sql = requestNewConnection()
         try {
             if (args.getChromosome().isPresent() && args.getStartPosition().isPresent()) {
@@ -375,18 +410,15 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
             }
 
             if (args.getChromosome().isPresent()) {
-                return fetchVariantsByChromosome(args.getChromosome().get(), referenceGenome, withConsequences,
-                        annotationSoftware, withVcfInfo,
-                        withGenotypes, sql)
+                return fetchVariantsByChromosome(args.getChromosome().get(), referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes, sql)
             }
 
             if (args.getSampleId().isPresent() && args.getGeneId().isPresent()) {
-                return fetchVariantsBySampleAndGeneId(args.getSampleId().get(), args.getGeneId().get(), referenceGenome,
-                        withConsequences, annotationSoftware, withVcfInfo, withGenotypes, sql)
+                return fetchVariantsBySampleAndGeneId(args.getSampleId().get(), args.getGeneId().get(), referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes, sql)
             }
 
             if (args.getSampleId().isPresent()) {
-                return fetchVariantsBySample(args.getSampleId().get(), referenceGenome, withConsequences,
+                return  fetchVariantsBySample(args.getSampleId().get(), referenceGenome, withConsequences,
                         annotationSoftware, withVcfInfo, withGenotypes, sql)
             }
 
@@ -410,20 +442,24 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    ReferenceGenome findReferenceGenomeByVariant(Variant variant) {
+    Set<ReferenceGenome> findReferenceGenomeByVariant(Variant variant) {
         Sql sql = requestNewConnection()
         try {
             def result =
                     sql.firstRow("SELECT id FROM variant WHERE variant.chr=? and variant.start=? and variant.end=? and variant.ref=? and variant.obs=? and variant.issomatic=?",
                             [variant.chromosome, variant.startPosition, variant.endPosition, variant.referenceAllele, variant
-                                    .observedAllele, variant.isSomatic])
-
-            def resultReference = sql.firstRow("SELECT * FROM referencegenome INNER JOIN variant_has_referencegenome WHERE variant_has_referencegenome.variant_id = ${result.id}")
-            def referenceGenomeSource = resultReference.get("source") as String
-            def referenceGenomeBuild = resultReference.get("build") as String
-            def referenceGenomeVersion = resultReference.get("version") as String
-            def referenceGenome = new ReferenceGenome(referenceGenomeSource, referenceGenomeBuild, referenceGenomeVersion)
-            return referenceGenome
+                                    .observedAllele, variant.somatic])
+
+            def referenceGenomeSet = new HashSet<ReferenceGenome>()
+            def resultReference = sql.rows("SELECT * FROM referencegenome INNER JOIN variant_has_referencegenome WHERE variant_has_referencegenome.variant_id = ${result.id}")
+            resultReference.each {
+                def referenceGenomeSource = resultReference.get("source") as String
+                def referenceGenomeBuild = resultReference.get("build") as String
+                def referenceGenomeVersion = resultReference.get("version") as String
+                def referenceGenome = new ReferenceGenome(referenceGenomeSource, referenceGenomeBuild, referenceGenomeVersion)
+                referenceGenomeSet.add(referenceGenome)
+            }
+            return referenceGenomeSet
         } catch (Exception e) {
             throw new VariantstoreStorageException("Could not fetch reference genome.", e.fillInStackTrace())
         } finally {
@@ -435,7 +471,7 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      * {@inheritDoc}
      */
     @Override
-    Annotation findAnnotationSoftwareByConsequence(Consequence consequence) {
+    Set<Annotation> findAnnotationSoftwareByConsequence(Consequence consequence) {
         Sql sql = requestNewConnection()
         try {
             def result = sql.firstRow("""SELECT id FROM consequence WHERE consequence.allele=? and consequence
@@ -444,9 +480,7 @@ consequence.biotype=? and consequence.canonical=? and consequence.aachange=? and
 consequence.cdsposition=? and consequence.proteinposition=? and consequence.proteinlength=? and consequence
 .cdnalength=? and consequence.cdslength=? and consequence.impact=? and consequence.exon=? and consequence.intron=? 
 and consequence.strand=? and consequence.genesymbol=? and consequence.featuretype=? and consequence.distance=? and 
-consequence.warnings=?""",
-
-                    [consequence.allele, consequence.codingChange, consequence.transcriptId, consequence
+consequence.warnings=?""", [consequence.allele, consequence.codingChange, consequence.transcriptId, consequence
                             .transcriptVersion, consequence.type,
                      consequence.bioType, consequence.canonical, consequence.aaChange, consequence.cdnaPosition,
                      consequence.cdsPosition, consequence
@@ -456,12 +490,16 @@ consequence.warnings=?""",
                              .geneSymbol, consequence.featureType,
                      consequence.distance, consequence.warnings])
 
-            def resultAnnotation = sql.firstRow("SELECT * FROM annotationsoftware INNER JOIN annotationsoftware_has_consequence WHERE annotationsoftware_has_consequence.consequence_id = ${result.id}")
-            def annotationSoftwareName = resultAnnotation.get("name") as String
-            def annotationSoftwareVersion = resultAnnotation.get("version") as String
-            def annotationSoftwareDoi = resultAnnotation.get("doi") as String
-            def annotationSoftware = new Annotation(annotationSoftwareName, annotationSoftwareVersion, annotationSoftwareDoi)
-            return annotationSoftware
+            def annotationSoftwareSet = new HashSet()
+            def resultAnnotation = sql.rows("SELECT * FROM annotationsoftware INNER JOIN annotationsoftware_has_consequence WHERE annotationsoftware_has_consequence.consequence_id = ${result.id}")
+            resultAnnotation.each {
+                def annotationSoftwareName = it.get("name") as String
+                def annotationSoftwareVersion = it.get("version") as String
+                def annotationSoftwareDoi = it.get("doi") as String
+                def annotationSoftware = new Annotation(annotationSoftwareName, annotationSoftwareVersion, annotationSoftwareDoi)
+                annotationSoftwareSet.add(annotationSoftware)
+            }
+            return annotationSoftwareSet
         } catch (Exception e) {
             throw new VariantstoreStorageException("Could not fetch annotation software.", e.fillInStackTrace())
         } finally {
@@ -473,7 +511,7 @@ consequence.warnings=?""",
      * {@inheritDoc}
      */
     @Override
-    List<Gene> findGenes(@NotNull ListingArguments args) {
+    Set<Gene> findGenes(@NonNull ListingArguments args) {
         Sql sql = requestNewConnection()
         try {
             if (args.getSampleId()) {
@@ -585,6 +623,8 @@ consequence.warnings=?""",
      * {@inheritDoc}
      */
     @Override
+    @TransactionalAdvice('variantstore-mariadb')
+    @Transactional
     void storeVariantsInStoreWithMetadata(MetadataContext metadata, Map sampleIdentifiers, ArrayList variants) throws
             VariantstoreStorageException {
         try {
@@ -670,21 +710,21 @@ consequence.warnings=?""",
      * {@inheritDoc}
      */
     @Override
-    void storeGenesWithMetadata(Integer version, String date, ReferenceGenome referenceGenome, List<Gene> genes)
+    void storeGenesWithMetadata(Ensembl ensemblContext)
             throws VariantstoreStorageException {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
         try {
-            tryToStoreReferenceGenome(referenceGenome)
-            def rgId = tryToFindReferenceGenome(referenceGenome)
+            tryToStoreReferenceGenome(ensemblContext.referenceGenome)
+            def rgId = tryToFindReferenceGenome(ensemblContext.referenceGenome)
 
-            tryToStoreEnsemblDB(version, date, rgId)
-            def enId = tryToFindEnsemblDB(version, date, rgId)
+            tryToStoreEnsemblDB(ensemblContext.version, ensemblContext.date, rgId)
+            def enId = tryToFindEnsemblDB(ensemblContext.version, ensemblContext.date, rgId)
 
-            tryToStoreGeneObjects(genes)
+            tryToStoreGeneObjects(ensemblContext.genes)
 
             /* GET ids of genes */
-            def geneIdMap = tryToFindGenes(genes)
+            def geneIdMap = tryToFindGenes(ensemblContext.genes)
 
             /* INSERT genes and ensembl version in junction table */
             tryToStoreJunctionBatch(enId, geneIdMap.values().asList(), insertEnsemblGeneJunction)
@@ -711,7 +751,7 @@ consequence.warnings=?""",
 
         def varsToFind = new HashSet()
         def varsIdMap = [:]
-        def infoValues = []
+        List<VcfInfo> infoValues = []
         def propsToUse = ["ancestralAllele", "alleleCount", "alleleFrequency"]
         def props = VcfInfo.declaredFields.findAll { !it.synthetic && propsToUse.contains(it.name) }.collect { it }
 
@@ -800,7 +840,7 @@ consequence.warnings=?""",
                     sqlSelect.append(") and variant.obs in (")
                     sqlSelect.append(varsToFind.collect { "'$it.observedAllele'" }.join(','))
                     sqlSelect.append(") and variant.issomatic in (")
-                    sqlSelect.append(varsToFind.collect { "$it.isSomatic" }.join(','))
+                    sqlSelect.append(varsToFind.collect { "$it.somatic" }.join(','))
                     sqlSelect.append(")")
 
                     try {
@@ -837,7 +877,7 @@ consequence.warnings=?""",
             }
         }
         variants.each { var ->
-            ids[var] = varsIdMap["$var.chromosome$var.startPosition$var.endPosition$var.referenceAllele$var.observedAllele$var.isSomatic"]
+            ids[var] = varsIdMap["$var.chromosome$var.startPosition$var.endPosition$var.referenceAllele$var.observedAllele$var.somatic"]
             def newKey = new StringBuilder("")
             props.each { prop ->
                 newKey.append(var.vcfInfo.getProperty(prop.name))
@@ -886,7 +926,7 @@ genotype.mappingquality IS NULL""")
                             }
                         }
                         else {
-                            log.error("Incompatible sample/genotype information provided.")
+                            LOGGER.error("Incompatible sample/genotype information provided.")
                         }
                     }
 
@@ -1009,7 +1049,7 @@ genotype.mappingquality=?""",
      * @param genes a list of genes
      * @return map with database ids (gene: id)
      */
-    HashMap tryToFindGenes(List<Gene> genes) {
+    HashMap tryToFindGenes(Set<Gene> genes) {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
         def ids = [:]
@@ -1062,8 +1102,7 @@ genotype.mappingquality=?""",
      * @param consequenceToGeneIds a map with consequence: genes
      * @return map with database identifiers (consequence: gene ids)
      */
-    private HashMap<Consequence, List<String>> tryToFindGenesByConsequence(HashMap<Consequence, List<String>>
-                                                                                   consequenceToGeneIds) {
+    private HashMap<Consequence, List<String>> tryToFindGenesByConsequence(HashMap<Consequence, List<String>> consequenceToGeneIds) {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
         def ids = [:]
@@ -1102,6 +1141,17 @@ genotype.mappingquality=?""",
         return ids as HashMap<Consequence, List<String>>
     }
 
+    /**
+     * Get project from the store by identifier
+     * @param id the project identifier
+     * @param sql the sql connection
+     * @return the found project (optional)
+     */
+    private List<Project> fetchProjectForId(String id, Sql sql) {
+        def result = sql.rows("""SELECT distinct project.id FROM project WHERE project.id=$id;""")
+        List<Project> projects = result.collect { convertRowResultToProject(it) }
+        return projects
+    }
 
     /**
      * Get case from the store by identifier
@@ -1132,7 +1182,7 @@ genotype.mappingquality=?""",
      * @param sql the sql connection
      * @return the found variant
      */
-    private List<Variant> fetchVariantForId(String id, Sql sql) {
+    private Set<Variant> fetchVariantForId(String id, Sql sql) {
         def result = sql.rows("""SELECT variant.id as varid, variant.chr as varchr, variant.start as varstart, 
 variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.issomatic as varsomatic, variant.uuid as
  varuuid, variant.databaseidentifier as vardbid, consequence.*, gene.id as geneindex, gene.geneid as geneid FROM variant INNER JOIN variant_has_consequence 
@@ -1163,12 +1213,23 @@ variant.end as varend, variant.ref as varref, variant.obs as varobs, variant.iss
      */
     private List<Gene> fetchGeneForIdWithEnsemblVersion(String id, Integer ensemblVersion, Sql sql) {
         def result = sql.rows("""SELECT distinct * FROM gene INNER JOIN ensembl_has_gene ON gene.id = 
-Ensembl_has_gene.gene_id INNER JOIN ensembl ON ensembl_has_gene.ensembl_id = ensembl.id WHERE gene.geneid=$id and 
+ensembl_has_gene.gene_id INNER JOIN ensembl ON ensembl_has_gene.ensembl_id = ensembl.id WHERE gene.geneid=$id and 
 ensembl.version=$ensemblVersion;""")
         List<Gene> genes = result.collect { convertRowResultToGene(it) }
         return genes
     }
 
+    /**
+     * Get all projects from the store
+     * @param sql the sql connection
+     * @return the found projects
+     */
+    private List<Project> fetchProjects(Sql sql) {
+        def result = sql.rows("SELECT * FROM project;")
+        List<Project> projects = result.collect { it -> convertRowResultToProject(it) }
+        return projects
+    }
+
     /**
      * Get all cases from the store
      * @param sql the sql connection
@@ -1187,7 +1248,7 @@ ensembl.version=$ensemblVersion;""")
      */
     private List<Sample> fetchSamples(Sql sql) {
         def result = sql.rows("SELECT * FROM sample;")
-        List<Sample> samples = result.collect { convertRowResultToSample(it) }
+        List<Sample> samples = result.collect { it -> convertRowResultToSample(it) }
         return samples
     }
 
@@ -1201,7 +1262,7 @@ ensembl.version=$ensemblVersion;""")
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariants(referenceGenome,withConsequences, annotationSoftware, withVcInfo, withGenotypes, Sql sql) {
+    private Set<Variant> fetchVariants(referenceGenome,withConsequences, annotationSoftware, withVcInfo, withGenotypes, Sql sql) {
         def result
         if (withConsequences & withGenotypes) {
             // we will fetch VcfInfo information as well since this case is always VCF output format
@@ -1292,8 +1353,7 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connection
      * @return the found cases
      */
-    private List<Case> fetchCasesByChromosomeAndPositionRange(String chromosome, BigInteger startPosition, BigInteger
-            endPosition, Sql sql) {
+    private List<Case> fetchCasesByChromosomeAndPositionRange(String chromosome, BigInteger startPosition, BigInteger endPosition, Sql sql) {
         def result = sql.rows("""select distinct entity.id, project_id from entity INNER JOIN sample ON entity.id = 
 sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant.sample_id INNER JOIN
  variant ON variant.id = sample_has_variant.variant_id where variant.chr=$chromosome AND variant.start>=$startPosition AND variant.end<=$endPosition;""")
@@ -1325,9 +1385,10 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsByChromosomeAndStartPosition(String chromosome, BigInteger start, String
-            referenceGenome, Boolean withConsequences, String annotationSoftware, Boolean withVcInfo, Boolean
-            withGenotypes, Sql sql) {
+    private Set<Variant> fetchVariantsByChromosomeAndStartPosition(String chromosome, BigInteger start,
+                                                                    String referenceGenome, Boolean withConsequences,
+                                                                    String annotationSoftware, Boolean withVcInfo,
+                                                                    Boolean withGenotypes, Sql sql) {
         def result
 
         if (withConsequences & withGenotypes) {
@@ -1361,8 +1422,9 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsByChromosome(String chromosome, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
+    private Set<Variant> fetchVariantsByChromosome(String chromosome, String referenceGenome, Boolean withConsequences,
+                                                    String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes,
+                                                    Sql sql) {
         def result
         if (withConsequences & withGenotypes) {
             // we will fetch VcfInfo information as well since this case is always VCF output format
@@ -1394,8 +1456,8 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsByStartPosition(BigInteger start, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
+    private Set<Variant> fetchVariantsByStartPosition(BigInteger start, String referenceGenome, Boolean withConsequences,
+                                                       String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
         def result
 
         if (withConsequences & withGenotypes) {
@@ -1429,7 +1491,7 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsBySample(String sampleId, String referenceGenome, Boolean withConsequences,
+    private Set<Variant> fetchVariantsBySample(String sampleId, String referenceGenome, Boolean withConsequences,
                                                 String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
         def result
         if (withConsequences & withGenotypes) {
@@ -1465,9 +1527,9 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsBySampleAndGeneId(String sampleId, String geneId, String referenceGenome,
-                                                         Boolean withConsequences, String annotationSoftware, Boolean
-                                                                 withVcInfo, Boolean withGenotypes, Sql sql) {
+    private Set<Variant> fetchVariantsBySampleAndGeneId(String sampleId, String geneId, String referenceGenome,
+                                                         Boolean withConsequences, String annotationSoftware,
+                                                         Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
         def result
         if (withConsequences & withGenotypes) {
             // we will fetch VcfInfo information as well since this case is always VCF output format
@@ -1500,7 +1562,7 @@ sample.entity_id INNER JOIN sample_has_variant ON sample.id = sample_has_variant
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsByGeneId(String geneId, String referenceGenome, Boolean withConsequences,
+    private Set<Variant> fetchVariantsByGeneId(String geneId, String referenceGenome, Boolean withConsequences,
                                                 String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
         def result
 
@@ -1539,7 +1601,7 @@ annotationsoftware.name='${annotationSoftware}' AND geneid='${geneId}';"""))
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsByGeneName(String geneName, String referenceGenome, Boolean withConsequences,
+    private Set<Variant> fetchVariantsByGeneName(String geneName, String referenceGenome, Boolean withConsequences,
                                                 String annotationSoftware, Boolean withVcInfo, Boolean withGenotypes, Sql sql) {
         def result
 
@@ -1577,7 +1639,7 @@ annotationsoftware.name='${annotationSoftware}' AND consequence.genesymbol='${ge
      * @param sql the sql connections
      * @return the found variants
      */
-    private List<Variant> fetchVariantsForBeaconResponse(String chromosome, BigInteger start,
+    private Set<Variant> fetchVariantsForBeaconResponse(String chromosome, BigInteger start,
                                                          String reference, String observed, String assemblyId, Sql sql) {
 
         //TODO check if we might get unprecise results due to like
@@ -1659,8 +1721,8 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
     void tryToStoreJunctionBatchForSamplesAndVariants(HashMap<Sample, Integer> samples,
                                                       HashMap<SimpleVariantContext, Integer> connectorMap,
                                                       HashMap<SimpleVariantContext, Integer> infoMap,
-                                                      HashMap<SimpleVariantContext, HashMap<String, Integer>>
-                                                              genotypeMap, String insertStatement) {
+                                                      HashMap<SimpleVariantContext, HashMap<String, Integer>> genotypeMap,
+                                                      String insertStatement) {
 
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
@@ -1681,7 +1743,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param variants a list of variants
      * @param list of consequences of the provded variants
      */
-    private List tryToStoreVariantsBatch(ArrayList<SimpleVariantContext> variants) {
+    private List<Consequence> tryToStoreVariantsBatch(ArrayList<SimpleVariantContext> variants) {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
         def consequences = []
@@ -1700,8 +1762,8 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
                 pstmt.setInt(4, variant.getEndPosition().toInteger())
                 pstmt.setString(5, variant.getReferenceAllele())
                 pstmt.setString(6, variant.getObservedAllele())
-                pstmt.setBoolean(7, variant.getIsSomatic())
-                pstmt.setString(8,  variant.getDatabaseId())
+                pstmt.setBoolean(7, variant.isSomatic())
+                pstmt.setString(8,  variant.getDatabaseIdentifier())
                 pstmt.addBatch()
             }
             pstmt.executeBatch()
@@ -1724,7 +1786,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
     private void tryToStoreVariantInfo(ArrayList variants) {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
-        def props = VcfInfo.declaredFields.findAll { !it.synthetic }.collect { it }
+        def props = VcfInfo.declaredFields.findAll { !it.synthetic && it.name != "sampleVariants" && it.name != "id" }.collect { it }
         HashSet<String> vcfInfos = new HashSet<>()
         for (var in variants) {
             vcfInfos.add(var.vcfInfo)
@@ -1855,7 +1917,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      */
     private String tryToStoreCase(Case patient) {
         Sql sql = requestNewConnection()
-        sql.connection.autoCommit = false
+        //sql.connection.autoCommit = false
         sql.withTransaction {
             sql.executeInsert("INSERT INTO entity (id) values (?) ON DUPLICATE KEY UPDATE id=id;", [patient.identifier])
         }
@@ -2020,7 +2082,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param genes a list of gene objects
      * @return the list of genes
      */
-    private List<Gene> tryToStoreGeneObjects(List<Gene> genes) {
+    private Set<Gene> tryToStoreGeneObjects(Set<Gene> genes) {
         Sql sql = requestNewConnection()
         sql.connection.autoCommit = false
         sql.withBatch("insert INTO gene (symbol, name, biotype, chr, start, end, synonyms, geneid, description, strand, version) values (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?) ON DUPLICATE KEY UPDATE symbol=?, name=?, biotype=?, chr=?, start=?, end=?, synonyms=?, geneid=?, description=?, strand=?, version=?") {
@@ -2108,19 +2170,29 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param row the query result
      * @return the case
      */
-    private static Case convertRowResultToCase(GroovyRowResult row) {
+    Case convertRowResultToCase(GroovyRowResult row) {
         def entity = new Case(row.get("id") as String, row.get("project_id") as String)
         return entity
     }
 
+    /**
+     * Convert database query result to project
+     * @param row the query result
+     * @return the project
+     */
+    Project convertRowResultToProject(GroovyRowResult row) {
+        def project = new Project()
+        project.setIdentifier(row.get("id") as String)
+        return project
+    }
+
     /**
      * Convert database query result to sample
      * @param row the query result
      * @return the sample
      */
-    private static Sample convertRowResultToSample(GroovyRowResult row) {
-        def sample = new Sample(row.get("identifier") as String, row.get("cancerentity") as String, row.get
-                ("entity_id") as String)
+    Sample convertRowResultToSample(GroovyRowResult row) {
+        def sample = new Sample(row.get("identifier") as String, row.get("cancerentity") as String, row.get("entity_id") as String)
         return sample
     }
 
@@ -2129,10 +2201,11 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param row the query result
      * @return the gene
      */
-    private static Gene convertRowResultToGene(GroovyRowResult row) {
-        def gene = new Gene(row.get("biotype") as String, row.get("chr") as String, row.get("symbol") as String, row.get("name") as String, row.get("start") as BigInteger, row.get("end") as BigInteger, row
-                .get("geneid") as String, row.get("description") as String, row.get("strand") as String, row.get
-                ("version") as Integer, [row.get("synonyms") as String])
+    Gene convertRowResultToGene(GroovyRowResult row) {
+        def gene = new Gene(row.get("biotype") as String, row.get("chr") as String, row.get("symbol") as String, row.get("name") as String,
+                row.get("start") as BigInteger, row.get("end") as BigInteger, row.get("geneid") as String,
+                row.get("description") as String, row.get("strand") as String, row.get ("version") as Integer,
+                [row.get("synonyms") as String])
         return gene
     }
 
@@ -2144,8 +2217,8 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param withGenotypes true, if genotypes should be included
      * @return the variant
      */
-    private static Variant convertRowResultToVariant(GroovyRowResult row, Boolean withConsequences, Boolean
-            withVcfInfo, Boolean withGenotypes) {
+    Variant convertRowResultToVariant(GroovyRowResult row, Boolean withConsequences, Boolean withVcfInfo,
+                                                     Boolean withGenotypes) {
         def variant = new Variant()
         variant.setIdentifier(row.get("varuuid") as String)
         variant.setChromosome(row.get("varchr") as String)
@@ -2153,11 +2226,11 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
         variant.setEndPosition(row.get("varend") as BigInteger)
         variant.setReferenceAllele(row.get("varref") as String)
         variant.setObservedAllele(row.get("varobs") as String)
-        variant.setIsSomatic(row.get("varsomatic") as Boolean)
+        variant.setSomatic(row.get("varsomatic") as Boolean)
         variant.setDatabaseIdentifier(row.get("vardbid") as String)
 
         if (withConsequences) {
-            variant.setConsequences([convertRowResultToConsequence(row)])
+            variant.setConsequences([convertRowResultToConsequence(row)] as Set<Consequence>)
         }
         if (withVcfInfo) {
             variant.setVcfInfo(convertRowResultToVcfInfo(row))
@@ -2173,7 +2246,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param row the query result
      * @return the consequence
      */
-    private static Consequence convertRowResultToConsequence(GroovyRowResult row) {
+    Consequence convertRowResultToConsequence(GroovyRowResult row) {
         def consequence = new Consequence(row.get("allele") as String, row.get("codingchange") as String, row.get("transcriptid") as String,
         row.get("transcriptversion") as Integer, row.get("type") as String, row.get("biotype") as String, row.get("canonical") as Boolean,
         row.get("aachange") as String, row.get("cdnaposition") as String, row.get("cdsposition") as String, row.get("proteinposition") as String,
@@ -2190,13 +2263,13 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param row the query result
      * @return the VCF info object
      */
-    private static VcfInfo convertRowResultToVcfInfo(GroovyRowResult row) {
+    VcfInfo convertRowResultToVcfInfo(GroovyRowResult row) {
         def aAllele = row.get("ancestralallele") as String
         def cigar =  row.get("cigar") as String
 
         def vcfInfo = new VcfInfo(aAllele != "" ? aAllele : null, new JsonSlurper().parseText(row.get("allelecount"))
-                as List<Integer>, new JsonSlurper().parseText(row.get("allelefrequency")) as List<Float>, row.get
-                ("numberalleles") as Integer, row.get("basequality") as Integer, cigar != "" ? cigar : null,
+                as List<Integer>, new JsonSlurper().parseText(row.get("allelefrequency")) as List<Float>,
+                row.get("numberalleles") as Integer, row.get("basequality") as Integer, cigar != "" ? cigar : null,
                 row.get("dbsnp") as Boolean, row.get("hapmaptwo") as Boolean, row.get("hapmapthree") as Boolean,
                 row.get("thousandgenomes") as Boolean, row.get("combineddepth") as Integer, row.get("endpos") as Integer,
                 row.get("rms") as Integer, row.get("mqzero") as Integer, row.get("strandbias") as Integer,
@@ -2210,7 +2283,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param row the query result
      * @return the genotype
      */
-    private static Genotype convertRowResultToGenotype(GroovyRowResult row) {
+    Genotype convertRowResultToGenotype(GroovyRowResult row) {
         def genotype = new Genotype(row.get("identifier") as String, row.get("genotype") as String, row.get("readdepth") as Integer,
                 row.get("filter") as String, row.get("likelihoods") as String, row.get("genotypelikelihoods") as String,
                 row.get("genotypelikelihoodshet") as String, row.get("posteriorprobs") as String,
@@ -2228,7 +2301,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param withGenotypes true, if genotype information should be included
      * @return the list of variants
      */
-    private static List<Variant> parseVariantQueryResult(List<GroovyRowResult> rows, Boolean withConsequence = true, withVcfInfo = false, Boolean withGenotypes = false) {
+    Set<Variant> parseVariantQueryResult(List<GroovyRowResult> rows, Boolean withConsequence = true, withVcfInfo = false, Boolean withGenotypes = false) {
         Map<String, List<Variant>> variantsIdMap = rows.collect { convertRowResultToVariant(it, withConsequence, withVcfInfo, withGenotypes) }
                 .groupBy { it.identifier }
         List<Variant> variants = []
@@ -2264,7 +2337,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
             value[0].consequences = joinedConsequences
             variants.add(value[0])
         }
-        return variants.flatten() as List<Variant>
+        return variants.flatten() as Set<Variant>
     }
 
     /**
@@ -2274,7 +2347,7 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
      * @param name a property name
      * @return the generated string
      */
-    private static String buildMultiSelectString(String field, List values, String name) {
+    String buildMultiSelectString(String field, List values, String name) {
         def formattedValues = []
         def classType = values[0][name]
          if (classType instanceof Boolean) {
@@ -2300,6 +2373,3 @@ gene.id = consequence_has_gene.gene_id INNER JOIN consequence on consequence_has
     }
 
 }
-
-
-
diff --git a/src/main/groovy/life/qbic/variantstore/database/PostgresSqlVariantstoreStorage.groovy b/src/main/groovy/life/qbic/variantstore/database/PostgresSqlVariantstoreStorage.groovy
new file mode 100644
index 0000000..8f91e54
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/database/PostgresSqlVariantstoreStorage.groovy
@@ -0,0 +1,781 @@
+package life.qbic.variantstore.database
+
+import io.micronaut.context.annotation.Primary
+import io.micronaut.context.annotation.Requires
+import life.qbic.variantstore.model.*
+
+import life.qbic.variantstore.parser.MetadataContext
+import life.qbic.variantstore.repositories.CaseRepository
+import life.qbic.variantstore.repositories.ConsequenceRepository
+import life.qbic.variantstore.repositories.EnsemblRepository
+import life.qbic.variantstore.repositories.GeneRepository
+import life.qbic.variantstore.repositories.GenotypeRepository
+import life.qbic.variantstore.repositories.ProjectRepository
+import life.qbic.variantstore.repositories.ReferenceGenomeRepository
+import life.qbic.variantstore.repositories.SampleRepository
+import life.qbic.variantstore.repositories.SampleVariantRepository
+import life.qbic.variantstore.repositories.VariantAnnotationRepository
+import life.qbic.variantstore.repositories.VariantCallerRepository
+import life.qbic.variantstore.repositories.VariantRepository
+import life.qbic.variantstore.repositories.VcfinfoRepository
+import life.qbic.variantstore.service.VariantstoreStorage
+import life.qbic.variantstore.util.ListingArguments
+import jakarta.inject.*
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
+
+/**
+ * A VariantstoreStorage implementation.
+ * This provides an interface to a PostgreSQL database storing variant information.
+ *
+ * @since: 1.1.0
+ */
+@Singleton
+@Primary
+@Requires(property = "database.specifier", value = "variantstore-postgres")
+class PostgresSqlVariantstoreStorage implements VariantstoreStorage {
+
+    private static final Logger LOGGER = LoggerFactory.getLogger(PostgresSqlVariantstoreStorage.class);
+
+    /**
+     * The repositories
+     */
+    @Inject ProjectRepository projectRepository
+    @Inject CaseRepository caseRepository
+    @Inject SampleRepository sampleRepository
+    @Inject VariantRepository variantRepository
+    @Inject GeneRepository geneRepository
+    @Inject ReferenceGenomeRepository referenceGenomeRepository
+    @Inject VariantCallerRepository variantCallerRepository
+    @Inject VariantAnnotationRepository variantAnnotationRepository
+    @Inject VcfinfoRepository vcfinfoRepository
+    @Inject GenotypeRepository genotypeRepository
+    @Inject SampleVariantRepository sampleVariantRepository
+    @Inject ConsequenceRepository consequenceRepository
+    @Inject EnsemblRepository ensemblRepository
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Variant> findVariantsForBeaconResponse(String chromosome, BigInteger start, String reference,
+                                                       String observed, String assemblyId) {
+        try {
+            def variant = variantRepository.findForBeacon(chromosome, start, reference, observed, assemblyId)
+            return variant
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Beacon something? $e.", e.printStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Optional<Project> findProjectById(String identifier) {
+        return projectRepository.findByIdentifier(identifier)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Case> findCaseById(String identifier) {
+        return caseRepository.findByIdentifier(identifier)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Sample> findSampleById(String identifier) {
+        return sampleRepository.findByIdentifier(identifier)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Variant> findVariantById(String identifier) {
+        return variantRepository.findByIdentifier(identifier)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Gene> findGeneById(String identifier, ListingArguments args) {
+        try {
+            if (args.getEnsemblVersion().isPresent()) {
+                return geneRepository.searchByGeneId(identifier, args.getEnsemblVersion().get())
+            }
+            def ensemblversion = fetchEnsemblVersion()
+            if (ensemblversion) {
+                return geneRepository.searchByGeneId(identifier, ensemblversion)
+            }
+            // fall back solution, if there is no ensembl version in the variantstore instance
+            return geneRepository.searchByGeneId(identifier)
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch gene with identifier $identifier.", e.printStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Project> findProjects(ListingArguments args) {
+        try {
+            return projectRepository.findAll()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch projects.", e.fillInStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Case> findCases(ListingArguments args) {
+        try {
+            if (args.getGene().isPresent()) {
+                if (args.getConsequenceType().isPresent()) {
+                    return caseRepository.searchByGeneSymbolAndConsequenceType(args.getGene().get(), args.getConsequenceType().get())
+                }
+                else {
+                    return caseRepository.searchByGeneSymbol(args.getGene().get())
+                }
+            }
+            if (args.getConsequenceType().isPresent()) {
+                return caseRepository.searchByConsequenceType(args.getConsequenceType().get())
+            }
+            if (args.getChromosome().isPresent() && args.getStartPosition().isPresent() && args.getEndPosition()
+                    .isPresent()) {
+                return caseRepository.searchByChromosomeAndStartPositionRange(args.getChromosome().get(), args.getStartPosition().get(),
+                        args.getEndPosition().get())
+            }
+            if (args.getChromosome().isPresent()) {
+                return caseRepository.searchByChromosome(args.getChromosome().get())
+            }
+            return caseRepository.findAll()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch cases.", e.printStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Sample> findSamples(ListingArguments args) {
+        try {
+            if (args.getCancerEntity().isPresent()) {
+                return sampleRepository.findByCancerEntity(args.getCancerEntity().get())
+            }
+            return sampleRepository.findAll()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch samples.", e.fillInStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Variant> findVariants(ListingArguments args, String referenceGenome, Boolean withConsequences,
+                                      String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes) {
+        try {
+            if (args.getChromosome().isPresent() && args.getStartPosition().isPresent()) {
+                return fetchVariantsByChromosomeAndStartPosition(args.getChromosome().get(), args.getStartPosition()
+                        .get(), referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            if (args.getStartPosition().isPresent()) {
+                return findVariantsByStartPosition(args.getStartPosition().get(), referenceGenome, withConsequences,
+                        annotationSoftware, withVcfInfo,
+                        withGenotypes)
+            }
+            if (args.getChromosome().isPresent()) {
+                return fetchVariantsByChromosome(args.getChromosome().get(), referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            if (args.getSampleId().isPresent() && args.getGeneId().isPresent()) {
+                return fetchVariantsBySampleAndGeneId(args.getSampleId().get(), args.getGeneId().get(), referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            if (args.getSampleId().isPresent()) {
+                return fetchVariantsBySample(args.getSampleId().get(), referenceGenome, withConsequences,
+                        annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            if (args.getGeneId().isPresent()) {
+                return fetchVariantsByGeneId(args.getGeneId().get(), referenceGenome, withConsequences,
+                        annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            if (args.getGene().isPresent()) {
+                return fetchVariantsByGeneName(args.getGene().get(), referenceGenome, withConsequences,
+                        annotationSoftware, withVcfInfo, withGenotypes)
+            }
+            return fetchVariants(referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes)
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch variants.", e.printStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Annotation> findAnnotationSoftwareByConsequence(Consequence consequence) {
+        try {
+            Optional<Consequence> searchResult = consequenceRepository.retrieve(consequence.allele, consequence
+                    .codingChange, consequence.transcriptId, consequence.transcriptVersion, consequence.type,
+                    consequence.bioType, consequence.canonical, consequence.aaChange, consequence.cdnaPosition,
+                    consequence.cdsPosition, consequence.proteinPosition, consequence.proteinLength, consequence.cdnaLength,
+                    consequence.cdsLength, consequence.impact, consequence.exon, consequence.intron, consequence.strand,
+                    consequence.geneSymbol, consequence.featureType, consequence.distance, consequence.warnings)
+
+            return searchResult.present ? searchResult.get().annotations : new HashSet()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch annotation software for provided consequence.",
+                    e.fillInStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<ReferenceGenome> findReferenceGenomeByVariant(Variant variant) {
+        def searchResult = variantRepository.search(variant.databaseIdentifier, variant.chromosome, variant.startPosition,
+                variant.endPosition, variant.referenceAllele, variant.observedAllele, variant.somatic)
+        return searchResult.present ? searchResult.get().referenceGenomes : new HashSet<ReferenceGenome>()
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    Set<Gene> findGenes(ListingArguments args) {
+        try {
+            if (args.getSampleId()) {
+                return geneRepository.getForSampleIdentifier(args.getSampleId().get())
+            }
+            return geneRepository.findAll()
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not fetch genes.", e.fillInStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeCaseInStore(Case patient) throws VariantstoreStorageException {
+        caseRepository.save(patient)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeSampleInStore(Sample sample) throws VariantstoreStorageException {
+        sampleRepository.save(sample)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeReferenceGenomeInStore(ReferenceGenome referenceGenome) throws VariantstoreStorageException {
+        referenceGenomeRepository.save(referenceGenome)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeVariantCallerInStore(VariantCaller variantCaller) throws VariantstoreStorageException {
+        variantCallerRepository.save(variantCaller)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeAnnotationSoftwareInStore(Annotation annotationSoftware) throws VariantstoreStorageException {
+        variantAnnotationRepository.save(annotationSoftware)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeVariantsInStoreWithMetadata(MetadataContext metadata, Map<String, Sample> sampleIdentifiers, ArrayList<SimpleVariantContext> variants) throws
+            VariantstoreStorageException  {
+        try {
+
+            def numberOfVariants = variants.size()
+            LOGGER.info("Processing ${numberOfVariants} variants...")
+
+            def project = metadata.getProject()
+            def entity = metadata.getCase()
+            def annotationTool = metadata.getVariantAnnotation()
+            def variantCaller = metadata.getVariantCalling()
+            def refGenome = metadata.getReferenceGenome()
+
+            def retrievedProject = projectRepository.findByIdentifier(project.identifier)
+            def newProject
+            if (retrievedProject.isPresent()) {
+                newProject = retrievedProject.get()
+            }
+            else {
+                newProject = projectRepository.save(project)
+            }
+
+            def searchResultVA = variantAnnotationRepository.find(annotationTool.name, annotationTool.version, annotationTool.doi)
+            def newVA = searchResultVA.present ? searchResultVA.get() : variantAnnotationRepository.save(annotationTool)
+
+            def searchResultVC = variantCallerRepository.find(variantCaller.name, variantCaller.version, variantCaller.doi)
+            def newVariantCaller = searchResultVC.present ? searchResultVC.get() : variantCallerRepository.save(variantCaller)
+
+            def searchResultRG = referenceGenomeRepository.find(refGenome.source, refGenome.build, refGenome.version)
+            def newReferenceGenome = searchResultRG.present ? searchResultRG.get() : referenceGenomeRepository.save(refGenome)
+
+            entity.setProject(newProject)
+            def retrievedEntity = caseRepository.findByIdentifier(entity.identifier)
+            def newEntity
+            if (!retrievedEntity.empty) {
+                newEntity = caseRepository.update(retrievedEntity.get(0))
+            }
+            else {
+                newEntity = caseRepository.save(entity)
+            }
+
+            def newSamples = new HashMap<String, Sample>()
+            if (!sampleIdentifiers.isEmpty()) {
+                sampleIdentifiers.each { name, sample ->
+                    sample.setEntity(newEntity)
+                    def searchResult = sampleRepository.findByIdentifier(sample.identifier)
+                    def newSample = !searchResult.empty ? searchResult.get(0) : sampleRepository.save(sample)
+                    newSamples[name] = newSample
+                }
+            }
+
+            List<Variant> newVariants = new ArrayList<Variant>()
+            Set<Consequence> consequencesToRegister = new HashSet<Consequence>()
+            def consequencesRegistered
+            def genotypesToRegister
+            def genotypesRegistered
+            //@TODO rather use genotype field of Variant class?
+            def variantGenotypeMap = new HashMap<Variant, Set<Genotype>>()
+            def variantVcfInfoMap = new HashMap<Variant, VcfInfo>()
+            def updateNeeded = false
+            def numberProcessed = 0
+
+            variants.each {var ->
+                consequencesToRegister = new HashSet<Consequence>()
+                consequencesRegistered = [] as Set
+                genotypesToRegister = [] as Set
+                genotypesRegistered = [] as Set
+
+                def searchResult = variantRepository.find(var.chromosome, var.startPosition, var.databaseIdentifier,
+                        var.endPosition, var.referenceAllele, var.observedAllele, var.somatic)
+                def newVariant = searchResult.present ? searchResult.get() : variantRepository.save(var as Variant)
+
+                var.consequences.each {Consequence consequence ->
+                    consequence.addAnnotationTool(newVA)
+
+                    def searchResultConsequence = consequenceRepository.find(consequence.allele, consequence
+                            .codingChange, consequence.transcriptId, consequence.transcriptVersion, consequence.type,
+                            consequence.bioType, consequence.canonical, consequence.aaChange, consequence.cdnaPosition,
+                    consequence.cdsPosition, consequence.proteinPosition, consequence.proteinLength, consequence.cdnaLength,
+                            consequence.cdsLength, consequence.impact, consequence.exon, consequence.intron,
+                    consequence.strand, consequence.geneSymbol, consequence.featureType, consequence.distance, consequence.warnings)
+
+                    if (!searchResultConsequence.present) {
+                    consequencesToRegister.add(consequence)
+                    }
+
+                    consequence.genes.each {gene ->
+                        def searchResultGene = geneRepository.findByGeneId(gene.geneId)
+                        searchResultGene.present ? searchResultGene.get() : geneRepository.save(gene)
+                    }
+                }
+
+                if (!consequencesToRegister.empty) {
+                    def registeredConsequences = consequenceRepository.saveAll(consequencesToRegister)
+                    registeredConsequences.each{
+                        consequenceRepository.update(it)
+                    }
+                }
+
+                var.genotypes.each {Genotype genotype ->
+                    def searchResultGenotype = genotypeRepository.find(genotype.genotype, genotype.readDepth,
+                            genotype.filter, genotype.likelihoods, genotype.genotypeLikelihoods, genotype.genotypeLikelihoodsHet,
+                            genotype.posteriorProbs, genotype.genotypeQuality, genotype.haplotypeQualities, genotype.phaseSet,
+                            genotype.phasingQuality, genotype.alternateAlleleCounts, genotype.mappingQuality)
+
+                    if (!searchResultGenotype.present) {
+                        genotypesToRegister.add(genotype)
+                    }
+                    else {
+                        searchResultGenotype.get().sampleName = genotype.sampleName
+                        genotypesRegistered.add(searchResultGenotype.get())
+                    }
+               }
+
+                newVariant.addVariantCaller(newVariantCaller)
+                newVariant.addReferenceGenome(newReferenceGenome)
+
+                def newGenotypes = genotypesToRegister.empty ? [] : genotypeRepository.saveAll(genotypesToRegister)
+                variantGenotypeMap[newVariant] = newGenotypes + genotypesRegistered as Set<Genotype>
+
+                def searchResultVcfInfo = vcfinfoRepository.find(var.vcfInfo.ancestralAllele, var.vcfInfo
+                        .alleleCount, var.vcfInfo.alleleFrequency, var.vcfInfo.numberAlleles, var.vcfInfo
+                        .baseQuality, var.vcfInfo.cigar, var.vcfInfo.dbSnp, var.vcfInfo.hapmapTwo, var.vcfInfo
+                        .hapmapThree, var.vcfInfo.thousandGenomes, var.vcfInfo.combinedDepth, var.vcfInfo.endPos, var
+                        .vcfInfo.rms, var.vcfInfo.mqZero, var.vcfInfo.strandBias, var.vcfInfo.numberSamples, var
+                        .vcfInfo.somatic, var.vcfInfo.validated)
+
+                def newVcfInfo = searchResultVcfInfo.present ? searchResultVcfInfo.get() : vcfinfoRepository.save(var.vcfInfo)
+                variantVcfInfoMap[newVariant] = newVcfInfo
+
+                updateNeeded = !(searchResult.present & searchResultVA.present & searchResultVC.present & searchResultRG.present &
+                        searchResultVcfInfo.present & consequencesToRegister.empty & genotypesToRegister.empty)
+
+                if (updateNeeded) { newVariants.add(newVariant) }
+
+                numberProcessed++
+                def ratio = Math.round(numberOfVariants / 10)
+                if (ratio > 0 && numberProcessed % ratio == 0) {
+                    LOGGER.info("${Math.round(numberProcessed / numberOfVariants * 100.0)}%")
+                }
+            }
+
+            // @Todo Wait for fix
+            // we cannot use updateAll here since there seems to be a Bug and it does not propagate the updates to
+            // all entities in the list
+            if (!newVariants.empty) {
+                newVariants.each {
+                    variantRepository.update(it)
+                }
+                //variantRepository.updateAll(newVariants)
+            }
+
+            List<SampleVariant> sampleVariants = new ArrayList<SampleVariant>()
+            newVariants.each { variant ->
+                if (variantGenotypeMap[variant].empty) {
+                    newSamples.each {
+                        def sampleVariant = new SampleVariant(it.value, variant, variantVcfInfoMap[variant], null)
+                        def sampleVariantSearch = sampleVariantRepository.findBySampleAndVariantAndVcfinfoAndGenotype(it.value, variant, variantVcfInfoMap[variant], null)
+                        if (!sampleVariantSearch.present) {
+                            sampleVariants.add(sampleVariant)
+                        }
+                    }
+                } else {
+                    variantGenotypeMap[variant].each { genotype ->
+                        def sampleVariant = new SampleVariant(newSamples[genotype.sampleName], variant, variantVcfInfoMap[variant], genotype)
+                        def sampleVariantSearch = sampleVariantRepository.findBySampleAndVariantAndVcfinfoAndGenotype(newSamples[genotype.sampleName], variant, variantVcfInfoMap[variant], genotype)
+                        if (!sampleVariantSearch.present) {
+                            sampleVariants.add(sampleVariant)
+                        }
+                    }
+                }
+            }
+            if (!sampleVariants.empty) {
+                sampleVariantRepository.saveAll(sampleVariants)
+            }
+        }
+        catch (Exception e) {
+            throw new VariantstoreStorageException("Could not store variants with metadata in store: $metadata.samples",
+                    e.printStackTrace())
+        }
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    void storeGenesWithMetadata(Ensembl ensemblContext) throws VariantstoreStorageException {
+        try {
+            def searchResultRG = referenceGenomeRepository.find(ensemblContext.referenceGenome.source, ensemblContext.referenceGenome.build, ensemblContext.referenceGenome.version)
+            def newReferenceGenome = searchResultRG.present ? searchResultRG.get() : referenceGenomeRepository.save(ensemblContext.referenceGenome)
+            ensemblContext.referenceGenome.id  = newReferenceGenome.id
+            def searchResultEnsembl = ensemblRepository.find(ensemblContext.version, ensemblContext.date, ensemblContext.referenceGenome)
+
+            if (searchResultEnsembl.present) {
+                ensemblContext.genes.each {
+                    if(!searchResultEnsembl.get().genes.contains(it)) {
+                        searchResultEnsembl.get().genes.add(it)
+                    }
+                }
+            }
+            searchResultEnsembl.present ? ensemblRepository.update(searchResultEnsembl.get()) : ensemblRepository.save(ensemblContext)
+        } catch (Exception e) {
+            throw new VariantstoreStorageException("Could not store genes in store: ", e.printStackTrace())
+        }
+    }
+
+    /**
+     * Get variants from the store
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    Set<Variant> fetchVariants(String referenceGenome, boolean withConsequences, String annotationSoftware, boolean withVcfInfo, boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.getAllWithConsequencesAndGenos(annotationSoftware, referenceGenome)
+        }
+        else if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.getAllWithConsequencesAndVcfInfo(annotationSoftware, referenceGenome)
+            } else {
+                return variantRepository.getAllWithConsequencesAndNoVcfInfo(annotationSoftware, referenceGenome)
+            }
+        } else {
+            if (withVcfInfo) {
+                return variantRepository.getAllWithVcfInfo(referenceGenome)
+            }
+            else {
+                return variantRepository.findAll()
+            }
+        }
+    }
+
+    /**
+     * Get variants by chromosome and start position from the store
+     * @param chromosome the chromosome
+     * @param start the genomic start position
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    // search, query, get, read or retrieve
+    private List<Variant> fetchVariantsByChromosomeAndStartPosition(
+            String chromosome, BigInteger start, String referenceGenome, Boolean withConsequences,
+            String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.searchByChromosomeAndStartPosition(chromosome, start, annotationSoftware, referenceGenome)
+        }
+        else if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.queryByChromosomeAndStartPosition(chromosome, start, annotationSoftware, referenceGenome)
+            } else {
+                return variantRepository.getByChromosomeAndStartPosition(chromosome, start, annotationSoftware, referenceGenome)
+            }
+        } else {
+            if (withVcfInfo) {
+                return variantRepository.retrieveByChromosomeAndStartPosition(chromosome, start, referenceGenome)
+            }
+            else {
+            return variantRepository.findByChromosomeAndStartPosition(chromosome, start, referenceGenome)
+            }
+        }
+    }
+
+    /**
+     * Get variants by genomic start position from the store
+     * @param startPosition the genomic start position
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private List<Variant> findVariantsByStartPosition(BigInteger startPosition, String referenceGenome,
+                                                      Boolean withConsequences, String annotationSoftware,
+                                                      Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.searchByStartPosition(startPosition, annotationSoftware, referenceGenome)
+        }
+        else if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.queryByStartPosition(startPosition, annotationSoftware, referenceGenome)
+            } else {
+                return variantRepository.getByStartPosition(startPosition, annotationSoftware, referenceGenome)
+            }
+        } else {
+            if (withVcfInfo) {
+                return variantRepository.retrieveByStartPosition(startPosition, referenceGenome)
+            }
+            else {
+                return variantRepository.findByStartPosition(startPosition, referenceGenome)
+            }
+        }
+    }
+
+    /**
+     * Get variants by chromosome from the store
+     * @param chromosome the chromosome
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private List<Variant> fetchVariantsByChromosome(String chromosome, String referenceGenome,
+                                                    Boolean withConsequences, String annotationSoftware,
+                                                    Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.searchByChromosome(chromosome, annotationSoftware, referenceGenome)
+        }
+        if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.queryByChromosome(chromosome, annotationSoftware, referenceGenome)
+            } else {
+                return variantRepository.getByChromosome(chromosome, annotationSoftware, referenceGenome)
+            }
+        }
+        if (withVcfInfo) {
+            return variantRepository.retrieveByChromosome(chromosome, referenceGenome)
+        } else {
+            return variantRepository.findByChromosome(chromosome, referenceGenome)
+        }
+    }
+    /**
+     * Get variants by sample and gene identifier from the store
+     * @param sampleIdentifier the sample identifier
+     * @param geneId the gene identifier
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private Set<Variant> fetchVariantsBySampleAndGeneId(String sampleIdentifier, String geneId, String referenceGenome,
+                                          Boolean withConsequences, String annotationSoftware,
+                                          Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.findUsingSampleIdAndGeneIdWithConsAndGeno(sampleIdentifier, geneId, referenceGenome, annotationSoftware)
+        }
+        if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.findUsingSampleIdAndGeneIdWithConsAndInfo(sampleIdentifier, geneId, referenceGenome,
+                        annotationSoftware)
+            } else {
+                return variantRepository.findUsingSampleIdAndGeneIdWithCons(sampleIdentifier, geneId, referenceGenome,
+                        annotationSoftware)
+            }
+        }
+        if (withVcfInfo) {
+            return variantRepository.findUsingSampleIdAndGeneIdWithInfo(sampleIdentifier, geneId, referenceGenome)
+        } else {
+            return variantRepository.findUsingSampleIdAndGeneId(sampleIdentifier, geneId, referenceGenome)
+        }
+    }
+
+    /**
+     * Get variants by sample identifier from the store
+     * @param sampleIdentifier the sample identifier
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private Set<Variant> fetchVariantsBySample(String sampleIdentifier, String referenceGenome,
+                                 Boolean withConsequences, String annotationSoftware,
+                                 Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.findUsingSampleIdWithConsAndGeno(sampleIdentifier, referenceGenome, annotationSoftware)
+        }
+        if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.findUsingSampleIdWithConsAndInfo(sampleIdentifier, referenceGenome,
+                        annotationSoftware)
+            } else {
+                return variantRepository.findUsingSampleIdWithCons(sampleIdentifier, referenceGenome,
+                        annotationSoftware)
+            }
+        }
+        if (withVcfInfo) {
+            return variantRepository.findUsingSampleIdWithInfo(sampleIdentifier, referenceGenome)
+        } else {
+            return variantRepository.findUsingSampleId(sampleIdentifier, referenceGenome)
+        }
+    }
+
+    /**
+     * Get variants by gene identifier from the store
+     * @param geneId the gene identifier
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private Set<Variant> fetchVariantsByGeneId(String geneId, String referenceGenome,
+                                 Boolean withConsequences, String annotationSoftware,
+                                 Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.findUsingGeneIdWithConsAndGeno(geneId, referenceGenome, annotationSoftware)
+        }
+        if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.findUsingGeneIdWithConsAndInfo(geneId, referenceGenome, annotationSoftware)
+            } else {
+                return variantRepository.findUsingGeneIdWithCons(geneId, referenceGenome, annotationSoftware)
+            }
+        }
+        if (withVcfInfo) {
+            return variantRepository.findUsingGeneIdWithInfo(geneId, referenceGenome)
+        }
+        def result = variantRepository.findUsingGeneId(geneId, referenceGenome)
+        return result
+    }
+
+    /**
+     * Get variants by gene name from the store
+     * @param geneName the gene name
+     * @param referenceGenome the reference genome
+     * @param withConsequences true if connected consequences should be returned
+     * @param annotationSoftware the annotation software
+     * @param withVcInfo true if connected VCF info should be returned
+     * @param withGenotypes true if connected genotypes should be returned
+     * @return the found variants
+     */
+    private Set<Variant> fetchVariantsByGeneName(String geneName, String referenceGenome,
+                                   Boolean withConsequences, String annotationSoftware,
+                                   Boolean withVcfInfo, Boolean withGenotypes) {
+        if (withConsequences & withGenotypes) {
+            // we will fetch VcfInfo information as well since this case is always VCF output format
+            return variantRepository.findUsingGeneNameWithConsAndGeno(geneName, referenceGenome, annotationSoftware)
+        }
+        if (withConsequences) {
+            if (withVcfInfo) {
+                return variantRepository.findUsingGeneNameWithConsAndInfo(geneName, referenceGenome, annotationSoftware)
+            } else {
+                return variantRepository.findUsingGeneNameWithCons(geneName, referenceGenome, annotationSoftware)
+            }
+        }
+        if (withVcfInfo) {
+            return variantRepository.findUsingGeneNameWithInfo(geneName, referenceGenome)
+        }
+        def result = variantRepository.findUsingGeneName(geneName, referenceGenome)
+        return result
+    }
+
+    /**
+     * Get the highest Ensembl version that is available in the store
+     * @param sql the sql connection
+     * @return the version of the ensembl data available
+     */
+    private Integer fetchEnsemblVersion() {
+        return ensemblRepository.fetchMaxVersion()
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/factories/GeneFactory.groovy b/src/main/groovy/life/qbic/variantstore/factories/GeneFactory.groovy
new file mode 100644
index 0000000..9c31b15
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/factories/GeneFactory.groovy
@@ -0,0 +1,49 @@
+package life.qbic.variantstore.factories
+
+import net.datafaker.Faker
+import life.qbic.variantstore.model.Gene
+
+/**
+ * Gene factory for generating random Gene objects.
+ *
+ * @since: 1.1.0
+ */
+class GeneFactory {
+
+    private static Faker faker
+    private static final Long MIN_VALID_GENOMIC_POSITION = Long.valueOf("0")
+    private static final Long MAX_VALID_GENOMIC_POSITION = Double.parseDouble("3.3e9").longValue()
+
+    GeneFactory() {
+        faker = new Faker()
+    }
+
+    Gene createGene() {
+        def geneStart = returnGeneStart()
+        return Gene.builder()
+                .chromosome(faker.regexify("(?:chr)?[1-9]|1[0-9]|2[0-3]|X|Y"))
+                .geneStart(geneStart as BigInteger)
+                .geneEnd(returnGeneEnd(geneStart))
+                .symbol(faker.regexify("[A-B1-9]{3,4}"))
+                .name(faker.lorem().word())
+                .description(faker.lorem().sentence())
+                .geneId(faker.regexify("ENSG[1-9]{11}"))
+                .version(faker.options().nextElement([1,2,3]))
+                .strand(faker.options().nextElement(["-1", "1"]))
+                .synonyms(returnSynonyms())
+                .build()
+    }
+
+    private ArrayList returnSynonyms() {
+        return faker.options().nextElement([], faker.lorem().words())
+    }
+
+    private Long returnGeneStart() {
+        return faker.number().numberBetween(MIN_VALID_GENOMIC_POSITION, MAX_VALID_GENOMIC_POSITION)
+    }
+
+    private BigInteger returnGeneEnd(Long geneStart) {
+        return faker.number().numberBetween(geneStart, MAX_VALID_GENOMIC_POSITION) as BigInteger
+    }
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/factories/GenotypeFactory.groovy b/src/main/groovy/life/qbic/variantstore/factories/GenotypeFactory.groovy
new file mode 100644
index 0000000..4b086bc
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/factories/GenotypeFactory.groovy
@@ -0,0 +1,38 @@
+package life.qbic.variantstore.factories
+
+import net.datafaker.Faker
+import life.qbic.variantstore.model.Genotype
+
+/**
+ * Genotype factory for generating random Genotype objects.
+ *
+ * @since: 1.1.0
+ */
+class GenotypeFactory {
+
+    private static Faker faker
+
+    GenotypeFactory() {
+        faker = new Faker()
+    }
+
+    Genotype createGenotype() {
+        return Genotype.builder()
+                .sampleName(faker.regexify("TUMOR|NORMAL|([A-B1-9]{3,7})"))
+                .genotype(faker.regexify("[CGAT][/|][CGAT]"))
+                .readDepth(faker.number().randomDigit())
+                .filter(faker.options().nextElement(["", "FILTERED"]))
+                .likelihoods(faker.regexify("[0-999],[0-999],[0-999]"))
+                .genotypeLikelihoods(faker.regexify('-\\d*\\.?\\d+,-\\d*\\.?\\d+,-\\d*\\.?\\d+'))
+                .genotypeLikelihoodsHet(faker.options().nextElement(["", "0:-75.22,1:-223.42,0/0:-323.03,1/0:-99.29,1/1:-802.53"]))
+                .posteriorProbs(faker.regexify("[0.0-1.0],[0.0-1.0],[0.0-1.0]"))
+                .genotypeQuality(faker.number().randomDigit())
+                .haplotypeQualities(faker.regexify("\\d+,\\d+"))
+                // not really defined what to put here
+                .phaseSet("")
+                .phasingQuality(faker.options().nextElement([-1, faker.number().randomNumber() as Integer]))
+                .alternateAlleleCounts((1..3).collect { faker.number().randomDigit() })
+                .mappingQuality(faker.number().randomDigit())
+                .build()
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/factories/SampleFactory.groovy b/src/main/groovy/life/qbic/variantstore/factories/SampleFactory.groovy
new file mode 100644
index 0000000..af87c61
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/factories/SampleFactory.groovy
@@ -0,0 +1,25 @@
+package life.qbic.variantstore.factories
+
+import net.datafaker.Faker
+import life.qbic.variantstore.model.Sample
+
+/**
+ * Sample factory for generating random Sample objects.
+ *
+ * @since: 1.1.0
+ */
+class SampleFactory {
+
+    private static Faker faker
+
+    SampleFactory() {
+        faker = new Faker()
+    }
+
+    Sample createSample() {
+        return Sample.builder()
+                .identifier(faker.regexify('(Q[A-Z0-9]{4}[0-9]{3}[A-Z][A-Z0-9]$)'))
+                .cancerEntity(faker.options().nextElement(["HCC", "ALL", "AML", "CHOL", "BRCA"]))
+                .build()
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/factories/VariantFactory.groovy b/src/main/groovy/life/qbic/variantstore/factories/VariantFactory.groovy
new file mode 100644
index 0000000..b0fbf64
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/factories/VariantFactory.groovy
@@ -0,0 +1,49 @@
+package life.qbic.variantstore.factories
+
+import net.datafaker.Faker
+import life.qbic.variantstore.model.Variant
+
+/**
+ * Variant factory for generating random Variant objects.
+ *
+ * @since: 1.1.0
+ */
+class VariantFactory {
+
+    private static Faker faker
+    private static final Long MIN_VALID_GENOMIC_POSITION = Long.valueOf("0")
+    private static final Long MAX_VALID_GENOMIC_POSITION = Double.parseDouble("3.3e9").longValue()
+
+    VariantFactory() {
+        faker = new Faker()
+    }
+
+    Variant createVariant() {
+        def variantStart = returnVariantStart()
+
+        return Variant.builder()
+                .identifier(faker.internet().uuid())
+                .databaseIdentifier(faker.lorem().characters(5, 10,
+                        true, true))
+                .chromosome(faker.regexify("(?:chr)?[1-9]|1[0-9]|2[0-3]|X|Y"))
+                .startPosition(variantStart as BigInteger)
+                .endPosition(returnVariantEnd(variantStart))
+                .referenceAllele(faker.regexify("[CGAT]+"))
+                .observedAllele(faker.regexify("[CGAT]+"))
+                .somatic(faker.bool().bool())
+                .build()
+    }
+
+    private ArrayList returnSynonyms() {
+        return faker.options().nextElement([], faker.lorem().words())
+    }
+
+    private Long returnVariantStart() {
+        return faker.number().numberBetween(MIN_VALID_GENOMIC_POSITION, MAX_VALID_GENOMIC_POSITION)
+    }
+
+    private BigInteger returnVariantEnd(Long variantStart) {
+        return faker.number().numberBetween(variantStart, MAX_VALID_GENOMIC_POSITION) as BigInteger
+    }
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/factories/VcfInfoFactory.groovy b/src/main/groovy/life/qbic/variantstore/factories/VcfInfoFactory.groovy
new file mode 100644
index 0000000..878068f
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/factories/VcfInfoFactory.groovy
@@ -0,0 +1,45 @@
+package life.qbic.variantstore.factories
+
+import net.datafaker.Faker
+import life.qbic.variantstore.model.VcfInfo
+
+/**
+ * VcfInfo factory for generating random VcfInfo objects.
+ *
+ * @since: 1.1.0
+ */
+class VcfInfoFactory {
+
+    private static Faker faker
+    private static final Long MAX_VALID_GENOMIC_POSITION = Double.parseDouble("3.3e9").longValue()
+
+    VcfInfoFactory() {
+        faker = new Faker()
+    }
+
+    VcfInfo createVcfInfo() {
+
+        def numberSamples = faker.number().randomDigit()
+
+        return VcfInfo.builder()
+        .ancestralAllele(faker.regexify("[CGAT]+"))
+        .alleleCount((1..numberSamples).collect { faker.number().randomDigit() })
+        .alleleFrequency((1..numberSamples).collect { faker.number().numberBetween(0, 1).toFloat() })
+        .numberAlleles(faker.number().randomDigit())
+        .baseQuality(faker.number().randomDigit())
+        .cigar(faker.regexify("[MNDI][0-10]+"))
+        .dbSnp(faker.bool().bool())
+        .hapmapTwo(faker.bool().bool())
+        .hapmapThree(faker.bool().bool())
+        .thousandGenomes(faker.bool().bool())
+        .combinedDepth(numberSamples * faker.random().nextInt(0, 250))
+        .endPos(faker.number().numberBetween(0, MAX_VALID_GENOMIC_POSITION).toInteger())
+        .rms(faker.number().randomNumber())
+        .mqZero(faker.number().randomDigit())
+        .strandBias(faker.number().randomDigit())
+        .numberSamples(numberSamples)
+        .somatic(faker.bool().bool())
+        .validated(faker.bool().bool())
+        .build()
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/Annotation.groovy b/src/main/groovy/life/qbic/variantstore/model/Annotation.groovy
index 633d870..7de3f7b 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Annotation.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Annotation.groovy
@@ -1,18 +1,29 @@
 package life.qbic.variantstore.model
 
 import groovy.transform.EqualsAndHashCode
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
- * A variant annotation software
+ * A variant annotation software.
  *
  * @since: 1.0.0
- *
  */
+@MappedEntity(value = "annotationsoftware", namingStrategy = NamingStrategies.LowerCase)
 @EqualsAndHashCode
 @Schema(name="Variant Annotation", description="A variant annotation software")
 class Annotation implements Software{
 
+    /**
+     * The identifier of a Variant Caller
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The name of a given annotation software
      */
@@ -26,12 +37,23 @@ class Annotation implements Software{
      */
     final String doi
 
+    @Relation(value = Relation.Kind.MANY_TO_MANY, mappedBy = "annotations")
+    Set<Consequence> consequences
+
     Annotation(String name, String version, String doi) {
         this.name = name
         this.version = version
         this.doi = doi
     }
 
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
     @Override
     String getName() {
         return name
@@ -46,4 +68,17 @@ class Annotation implements Software{
     String getDoi() {
         return doi
     }
+
+    Set<Consequence> getConsequences() {
+        return consequences
+    }
+
+    void setConsequences(Set<Consequence> consequences) {
+        this.consequences = consequences
+    }
+
+    void addConsequence(Consequence consequence){
+        if(consequences==null) consequences = [] as Set<Consequence>
+        consequences.add(consequence)
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleRequest.groovy b/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleRequest.groovy
index bb682a6..e5dd766 100644
--- a/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleRequest.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleRequest.groovy
@@ -2,6 +2,7 @@ package life.qbic.variantstore.model
 
 import com.fasterxml.jackson.annotation.JsonProperty
 import io.swagger.v3.oas.annotations.media.Schema
+import lombok.NoArgsConstructor
 
 /**
  * An allele request as interpreted by the beacon.
@@ -9,31 +10,28 @@ import io.swagger.v3.oas.annotations.media.Schema
  * @since: 1.0.0
  *
  */
-@Schema(name="BeaconAlleleRequest", description="A request to the beacon")
+@Schema(name = "BeaconAlleleRequest", description = "A request to the beacon")
+@NoArgsConstructor
 class BeaconAlleleRequest {
 
     /**
-     * The chromosome specified within a request
-     */
-    private final String referenceName
+     * The chromosome specified within a request*/
+    private String referenceName
     /**
-     * The start position specified within a request
-     */
-    private final BigInteger start
+     * The start position specified within a request*/
+    private BigInteger start
     /**
-     * The reference base(s) specified within a request
-     */
-    private final String referenceBases
+     * The reference base(s) specified within a request*/
+    private String referenceBases
     /**
-     * The observed (alternate) base(s) specified within a request
-     */
-    private final String alternateBases
+     * The observed (alternate) base(s) specified within a request*/
+    private String alternateBases
     /**
-     * The reference genome identifier specified within a request
-     */
-    private final String assemblyId
+     * The reference genome identifier specified within a request*/
+    private String assemblyId
 
-    BeaconAlleleRequest(String referenceName, BigInteger start, String referenceBases, String alternateBases, String assemblyId) {
+    BeaconAlleleRequest(String referenceName, BigInteger start, String referenceBases, String alternateBases,
+                        String assemblyId) {
         this.referenceName = referenceName
         this.start = start
         this.referenceBases = referenceBases
@@ -41,6 +39,8 @@ class BeaconAlleleRequest {
         this.assemblyId = assemblyId
     }
 
+    BeaconAlleleRequest() {}
+
     @JsonProperty("referenceName")
     String getReferenceName() {
         return referenceName
diff --git a/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleResponse.groovy b/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleResponse.groovy
index f7f41f6..10abaf3 100644
--- a/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleResponse.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/BeaconAlleleResponse.groovy
@@ -38,7 +38,7 @@ class BeaconAlleleResponse {
     }
 
     @JsonProperty("alleleRequest")
-    BeaconAlleleRequest getBeaconAlleleRequest() {
+    BeaconAlleleRequest getAlleleRequest() {
         return alleleRequest
     }
 
diff --git a/src/main/groovy/life/qbic/variantstore/model/Case.groovy b/src/main/groovy/life/qbic/variantstore/model/Case.groovy
index 69a0c82..061e014 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Case.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Case.groovy
@@ -2,6 +2,13 @@ package life.qbic.variantstore.model
 
 import com.fasterxml.jackson.annotation.JsonProperty
 import groovy.transform.EqualsAndHashCode
+import io.micronaut.core.annotation.Creator
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.jdbc.annotation.JoinColumn
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -9,38 +16,79 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.1.0
  */
-@EqualsAndHashCode
+@MappedEntity(value = "entity", namingStrategy = NamingStrategies.UnderScoreSeparatedLowerCase.class)
+@EqualsAndHashCode(includeFields=true, excludes = ["id", "samples"])
 @Schema(name = "Case", description = "A case")
 class Case {
 
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    Long id
+
     /**
      * The identifier of a case
      */
-    final String identifier
+    String identifier
+
+    /**
+     * The project associated with a case
+     */
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    @JoinColumn(name="project_id")
+    Project project
+
     /**
-     * The project identifier associated with a case
+     * The samples associated with a case
      */
-    final String projectId
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "entity", cascade = Relation.Cascade.ALL)
+    Set<Sample> samples
+
+    @Creator
+    Case() { }
 
     Case(String identifier, String projectId) {
         this.identifier = identifier
-        this.projectId = projectId
+        this.project = new Project().setIdentifier(projectId)
     }
 
-    Case(String identifier) {
-        this.identifier = identifier
-        this.projectId = ""
+    Long getId() {
+        return id
     }
 
     @Schema(description = "The case identifier")
-    @JsonProperty("id")
+    @JsonProperty("identifier")
     String getIdentifier() {
         return identifier
     }
 
-    @Schema(description = "The associated project identifier")
-    @JsonProperty("projectId")
-    String getProjectId() {
-        return projectId
+    @Schema(description = "The associated project")
+    @JsonProperty("project")
+    Project getProject() {
+        return project
+    }
+
+    @Schema(description = "The associated samples")
+    @JsonProperty("samples")
+    Set<Sample> getSamples() {
+        return samples
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    void setIdentifier(String identifier) {
+        this.identifier = identifier
+    }
+
+    void setProject(Project project) {
+        this.project = project
+    }
+
+    void setSamples(Set<Sample> samples) {
+        this.samples = samples
     }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/Consequence.groovy b/src/main/groovy/life/qbic/variantstore/model/Consequence.groovy
index d530849..7272eb3 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Consequence.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Consequence.groovy
@@ -1,8 +1,16 @@
 package life.qbic.variantstore.model
 
 import com.fasterxml.jackson.annotation.JsonProperty
-import groovy.transform.CompileStatic
 import groovy.transform.EqualsAndHashCode
+import io.micronaut.core.annotation.Creator
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.annotation.Transient
+import io.micronaut.data.jdbc.annotation.JoinColumn
+import io.micronaut.data.jdbc.annotation.JoinTable
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -10,109 +18,136 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.1.0
  */
-@EqualsAndHashCode
-@CompileStatic
+@MappedEntity(value = "consequence", namingStrategy = NamingStrategies.LowerCase)
+@EqualsAndHashCode(includeFields=true, excludes = "id, geneId")
 @Schema(name = "Consequence", description = "A variant consequence")
 class Consequence implements Comparable {
 
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The genomic allele of a consequence
      */
-    final String allele
+    String allele
     /**
      * The coding change in HGVS notation of a consequence
      */
-    final String codingChange
+    String codingChange
     /**
      * The transcript identifier of a consequence
      */
-    final String transcriptId
+    String transcriptId
     /**
      * The transcript version of a consequence
      */
-    final Integer transcriptVersion
+    Integer transcriptVersion
     /**
      * The type of a consequence
      */
-    final String type
+    String type
     /**
      * The biological type of a consequence
      */
-    final String bioType
+    String bioType
     /**
      * Indicating if the associated transcript is denoted as canonical
      */
-    final Boolean canonical
+    boolean canonical
     /**
      * The amino acid change of a consequence
      */
-    final String aaChange
+    String aaChange
     // the following three positions can be ranges (including -) therefore we will just use (for now) the string as
     // annotated
     /**
      * The cdna position of a consequence
      */
-    final String cdnaPosition
+    String cdnaPosition
     /**
      * The cds position of a consequence
      */
-    final String cdsPosition
+    String cdsPosition
     /**
      * The associated protein position of a consequence
      */
-    final String proteinPosition
+    String proteinPosition
     /**
      * The length of the associated protein of a consequence
      */
-    final Integer proteinLength
+    Integer proteinLength
     /**
      * The length of the associated cDNA sequence
      */
-    final Integer cdnaLength
+    Integer cdnaLength
     /**
      * The length of the associated cds sequence
      */
-    final Integer cdsLength
+    Integer cdsLength
     /**
      * The impact of a consequence
      */
-    final String impact
+    String impact
     /**
      * The associated exon of a consequence
      */
-    final String exon
+    String exon
     /**
      * The associated intron of a consequence
      */
-    final String intron
+    String intron
     /**
      * The associated strand of a consequence
      */
-    final Integer strand
+    Integer strand
     /**
      * The symbol of the associated gene of a consequence
      */
-    final String geneSymbol
+    String geneSymbol
     /**
      * The identifier of the associated gene of a consequence
      */
-    final String geneId
+    @Transient
+    String geneId
     /**
      * The feature type of a consequence
      */
-    final String featureType
+    String featureType
     /**
      * The shortest distance from variant to transcript
      */
-    final Integer distance
+    Integer distance
     /**
      * The warnings associated with a consequence
      */
-    final String warnings
+    String warnings
+
+    @JoinTable(name = "annotationsoftware_consequence",
+            joinColumns = @JoinColumn(name = "consequence_id"),
+            inverseJoinColumns = @JoinColumn(name = "annotationsoftware_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = Relation.Cascade.UPDATE)
+    Set<Annotation> annotations
+
+    @JoinTable(name = "gene_consequence",
+            joinColumns = @JoinColumn(name = "consequence_id"),
+            inverseJoinColumns = @JoinColumn(name = "gene_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = Relation.Cascade.UPDATE)
+    Set<Gene> genes
+
+    @Relation(value = Relation.Kind.MANY_TO_MANY, mappedBy = "consequences")
+    Set<Variant> variants
+
+    @Creator
+    Consequence() {}
 
     Consequence(String allele, String codingChange, String transcriptId, Integer transcriptVersion, String type,
-                String bioType, Boolean canonical, String aaChange, String cdnaPosition, String cdsPosition, String
-                        proteinPosition, Integer proteinLength, Integer cdnaLength, Integer cdsLength, String impact,
+                String bioType, Boolean canonical, String aaChange, String cdnaPosition, String cdsPosition,
+                String proteinPosition, Integer proteinLength, Integer cdnaLength, Integer cdsLength, String impact,
                 String exon, String intron, Integer strand, String geneSymbol, String geneId, String featureType,
                 Integer distance, String warnings) {
         this.allele = allele
@@ -140,11 +175,41 @@ class Consequence implements Comparable {
         this.warnings = warnings
     }
 
-    @Override
-    int compareTo(Object other) {
-        Consequence c = (Consequence) other
-        int byCoding = this.codingChange <=> c.codingChange
-        return byCoding ?: this.transcriptId <=> c.transcriptId
+    Consequence(String allele, String codingChange, String transcriptId, Integer transcriptVersion, String type,
+                String bioType, Boolean canonical, String aaChange, String cdnaPosition, String cdsPosition,
+                String proteinPosition, Integer proteinLength, Integer cdnaLength, Integer cdsLength, String impact,
+                String exon, String intron, Integer strand, String geneSymbol, String featureType,
+                Integer distance, String warnings) {
+        this.allele = allele
+        this.codingChange = codingChange
+        this.transcriptId = transcriptId
+        this.transcriptVersion = transcriptVersion
+        this.type = type
+        this.bioType = bioType
+        this.canonical = canonical
+        this.aaChange = aaChange
+        this.cdnaPosition = cdnaPosition
+        this.cdsPosition = cdsPosition
+        this.proteinPosition = proteinPosition
+        this.proteinLength = proteinLength
+        this.cdnaLength = cdnaLength
+        this.cdsLength = cdsLength
+        this.impact = impact
+        this.exon = exon
+        this.intron = intron
+        this.strand = strand
+        this.geneSymbol = geneSymbol
+        this.featureType = featureType
+        this.distance = distance
+        this.warnings = warnings
+    }
+
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
     }
 
     @JsonProperty("allele")
@@ -179,7 +244,7 @@ class Consequence implements Comparable {
     }
 
     @JsonProperty("canonical")
-    Boolean getCanonical() {
+    boolean isCanonical() {
         return canonical
     }
 
@@ -262,4 +327,40 @@ class Consequence implements Comparable {
     String getIntron() {
         return intron
     }
+
+    Set<Gene> getGenes() {
+        return genes
+    }
+
+    Set<Variant> getVariants() {
+        return variants
+    }
+
+    void setGenes(Set<Gene> genes) {
+        this.genes = genes
+    }
+
+    void setVariants(Set<Variant> variants) {
+        this.variants = variants
+    }
+
+    void setDistance(Integer distance) {
+        this.distance = distance
+    }
+
+    void setWarnings(String warnings) {
+        this.warnings = warnings
+    }
+
+    void addAnnotationTool(Annotation annotation){
+        if(annotations==null) annotations = [] as Set<Annotation>
+        annotations.add(annotation)
+    }
+
+    @Override
+    int compareTo(Object other) {
+        Consequence c = (Consequence) other
+        int byCoding = this.codingChange <=> c.codingChange
+        return byCoding ?: this.transcriptId <=> c.transcriptId
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/Ensembl.groovy b/src/main/groovy/life/qbic/variantstore/model/Ensembl.groovy
new file mode 100644
index 0000000..4a44f81
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/model/Ensembl.groovy
@@ -0,0 +1,99 @@
+package life.qbic.variantstore.model
+
+import com.fasterxml.jackson.annotation.JsonProperty
+import groovy.transform.EqualsAndHashCode
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.MappedProperty
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.jdbc.annotation.JoinColumn
+import io.micronaut.data.jdbc.annotation.JoinTable
+import io.swagger.v3.oas.annotations.media.Schema
+
+/**
+ * An Ensembl (database instance) object
+ *
+ * @since: 1.1.0
+ */
+@MappedEntity
+@EqualsAndHashCode
+class Ensembl {
+
+    /**
+     * The identifier of a Ensembl DB instance
+     */
+    @GeneratedValue
+    @Id
+    Long id
+
+    /**
+     * The version of a Ensembl DB instance
+     */
+    Integer version
+
+    /**
+     * The date of a Ensembl DB instance
+     */
+    String date
+
+    /**
+     * The reference genome associated with a Ensembl DB instance
+     */
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    @MappedProperty(value = "referencegenome_id")
+    ReferenceGenome referenceGenome
+
+    /**
+     * The genes associated with a Ensembl DB instance
+     */
+    @JoinTable(name = "ensembl_gene",
+            joinColumns = @JoinColumn(name = "ensembl_id"),
+            inverseJoinColumns = @JoinColumn(name = "gene_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = [Relation.Cascade.PERSIST, Relation.Cascade.UPDATE])
+    Set<Gene> genes
+
+    Ensembl() { }
+
+    Ensembl(Integer version, String date) {
+        this.version = version
+        this.date = date
+    }
+
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    @Schema(description = "The version")
+    @JsonProperty("version")
+    Integer getVersion() {
+        return version
+    }
+
+    @Schema(description = "The date")
+    @JsonProperty("date")
+    String getDate() {
+        return date
+    }
+
+    ReferenceGenome getReferenceGenome() {
+        return referenceGenome
+    }
+
+    void setReferenceGenome(ReferenceGenome referenceGenome) {
+        this.referenceGenome = referenceGenome
+    }
+
+    Set<Gene> getGenes() {
+        return genes
+    }
+
+    void setGenes(Set<Gene> genes) {
+        this.genes = genes
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/Gene.groovy b/src/main/groovy/life/qbic/variantstore/model/Gene.groovy
index 63ffbc2..526dfb5 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Gene.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Gene.groovy
@@ -2,6 +2,17 @@ package life.qbic.variantstore.model
 
 import com.fasterxml.jackson.annotation.JsonProperty
 import groovy.transform.EqualsAndHashCode
+import groovy.transform.builder.Builder
+import io.micronaut.core.annotation.Creator
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.MappedProperty
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.jdbc.annotation.JoinColumn
+import io.micronaut.data.jdbc.annotation.JoinTable
+import io.micronaut.data.model.DataType
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -9,54 +20,83 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.1.0
  */
-@EqualsAndHashCode
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase.class)
+@EqualsAndHashCode(includeFields=true, excludes = "id, consequences, ensembles")
 @Schema(name = "Gene", description = "A Gene")
+@Builder
 class Gene {
 
+    /**
+     * The identifier of a gene
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The chromosome of a gene
      */
-    final String chromosome
+    @MappedProperty("chr")
+    String chromosome
     /**
      * The symbol of a gene
      */
-    final String symbol
+    String symbol
     /**
      * The name of a gene
      */
-    final String name
+    String name
     /**
      * The biological classification (such as pseudogene and protein coding) of a gene
      */
-    final String bioType
+    String bioType
     /**
      * The description available for a gene
      */
-    final String description
+    String description
     /**
      * The start position of a gene
      */
-    final BigInteger geneStart
+    @MappedProperty("start")
+    BigInteger geneStart
     /**
      * The end position of a gene
      */
-    final BigInteger geneEnd
+    @MappedProperty("end")
+    BigInteger geneEnd
     /**
      * The identifier of a gene
      */
-    final String geneId
+    String geneId
     /**
      * The strand of a gene
      */
-    final String strand
+    String strand
     /**
      * The version of a gene
      */
-    final Integer version
+    Integer version
     /**
      * The associated synonyms of a gene
      */
-    final List<String> synonyms
+    @MappedProperty(type = DataType.STRING_ARRAY)
+    List<String> synonyms
+    /**
+     * The associated consequences of a gene
+     */
+    @Relation(value = Relation.Kind.MANY_TO_MANY, mappedBy = "genes")
+    Set<Consequence> consequences
+    /**
+     * The associated Ensembl database instances of a gene
+     */
+    @JoinTable(name = "ensembl_gene",
+            joinColumns = @JoinColumn(name = "gene_id"),
+            inverseJoinColumns = @JoinColumn(name = "ensembl_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = Relation.Cascade.UPDATE)
+    Set<Ensembl> ensembles = new HashSet<>()
+
+    @Creator
+    Gene() {}
 
     Gene(String bioType, String chromosome, String symbol, String name, BigInteger geneStart, BigInteger geneEnd,
          String geneId, String description, String strand, Integer version, List<String> synonyms) {
@@ -73,6 +113,14 @@ class Gene {
         this.synonyms = synonyms
     }
 
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
     @Schema(description = "The chromosome")
     @JsonProperty("chromosome")
     String getChromosome() {
@@ -138,4 +186,64 @@ class Gene {
     Integer getVersion() {
         return version
     }
+
+    Set<Consequence> getConsequences() {
+        return consequences
+    }
+
+    void setConsequences(Set<Consequence> consequences) {
+        this.consequences = consequences
+    }
+
+    Set<Ensembl> getEnsembles() {
+        return ensembles
+    }
+
+    void setEnsembles(Set<Ensembl> ensembles) {
+        this.ensembles = ensembles
+    }
+
+    void setChromosome(String chromosome) {
+        this.chromosome = chromosome
+    }
+
+    void setSymbol(String symbol) {
+        this.symbol = symbol
+    }
+
+    void setName(String name) {
+        this.name = name
+    }
+
+    void setBioType(String bioType) {
+        this.bioType = bioType
+    }
+
+    void setDescription(String description) {
+        this.description = description
+    }
+
+    void setGeneStart(BigInteger geneStart) {
+        this.geneStart = geneStart
+    }
+
+    void setGeneEnd(BigInteger geneEnd) {
+        this.geneEnd = geneEnd
+    }
+
+    void setGeneId(String geneId) {
+        this.geneId = geneId
+    }
+
+    void setStrand(String strand) {
+        this.strand = strand
+    }
+
+    void setVersion(Integer version) {
+        this.version = version
+    }
+
+    void setSynonyms(List<String> synonyms) {
+        this.synonyms = synonyms
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/Genotype.groovy b/src/main/groovy/life/qbic/variantstore/model/Genotype.groovy
index 73f2608..c87d35c 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Genotype.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Genotype.groovy
@@ -1,6 +1,13 @@
 package life.qbic.variantstore.model
 
 import groovy.transform.EqualsAndHashCode
+import groovy.transform.builder.Builder
+import io.micronaut.core.annotation.Creator
+import io.micronaut.core.annotation.Nullable
+import io.micronaut.data.annotation.*
+import io.micronaut.data.model.DataType
+import io.micronaut.data.model.naming.NamingStrategies
+import life.qbic.variantstore.util.IntegerListStringConverter
 import life.qbic.variantstore.util.VcfConstants
 
 /**
@@ -8,66 +15,101 @@ import life.qbic.variantstore.util.VcfConstants
  *
  * @since: 1.0.0
  */
-@EqualsAndHashCode(includes = 'genotype, readDepth, filter, likelihoods, genotypeLikelihoods, genotypeLikelihoodsHet, posteriorProbs, genotypeQuality, haplotypeQualities, phaseSet, phasingQuality, alternateAlleleCounts, mappingQuality')
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase.class)
+@EqualsAndHashCode(excludes =  ["sampleName", "sampleVariants"])
+@Builder
 class Genotype {
 
+    /**
+     * The identifier of a gene
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The sample name associated with a genotype
      */
-    final String sampleName
+    @Transient
+    String sampleName
     /**
      * The genotype, encoded as allele values separated by / or |
      */
-    final String genotype // GT
+    @Nullable
+    String genotype // GT
     /**
      * The measured read depth of a genotype
      */
-    final Integer readDepth // DP
+    @Nullable
+    Integer readDepth // DP
     /**
      * The filter indicating if this genotype was “called”
      */
-    final String filter // FT
+    @Nullable
+    String filter // FT
     /**
      * The phred-scaled genotype likelihoods (PL)
      */
-    final String likelihoods
+    @Nullable
+    String likelihoods
     /**
      * The genotype likelihoods (GL)
      */
-    final String genotypeLikelihoods
+    @Nullable
+    String genotypeLikelihoods
     /**
      * The genotype likelihoods of heterogeneous ploidy (GLE)
      */
-    final String genotypeLikelihoodsHet
+    @Nullable
+    String genotypeLikelihoodsHet
     /**
      * The phred-scaled genotype posterior probabilities (GP)
      */
-    final String posteriorProbs
+    @Nullable
+    String posteriorProbs
     /**
      * The quality (error probability) of a genotype (GQ)
      */
-    final Integer genotypeQuality
+    @Nullable
+    Integer genotypeQuality
     /**
      * The haplotype qualities (HQ)
      */
-    final String haplotypeQualities
+    @Nullable
+    String haplotypeQualities
     /**
      * A phase set is defined as a set of phased genotypes to which this genotype belongs (PS)
      */
-    final String phaseSet
+    @Nullable
+    String phaseSet
     /**
      * The phred-scaled probability (PQ)
      */
-    final Integer phasingQuality
+    @Nullable
+    Integer phasingQuality
     /**
      * The alternate allele counts of a genotype
      */
-    final String alternateAlleleCounts
+    @Nullable
+    @TypeDef(type = DataType.INTEGER_ARRAY)
+    @MappedProperty(type = DataType.STRING, converter = IntegerListStringConverter.class)
+    List<Integer> alternateAlleleCounts
     /**
      * The RMS mapping quality (MQ)
      */
-    final Integer mappingQuality // MQ RMS mapping quality
+    @Nullable
+    Integer mappingQuality // MQ RMS mapping quality
+    /**
+     * The association between sample, variant, vcfinfo, and genotypes
+     */
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "genotype")
+    Set<SampleVariant> sampleVariants
 
+    @Creator
+    Genotype() {}
+
+    /**
+    * Consturctor for creating Genotype from htsjdk genotype object
+     */
     Genotype(htsjdk.variant.variantcontext.Genotype genotypeContext) {
         sampleName = genotypeContext.sampleName
         genotype = genotypeContext.type.toString()
@@ -75,33 +117,34 @@ class Genotype {
         filter = genotypeContext.filters ? genotypeContext.filters : ""
         likelihoods = genotypeContext.likelihoodsString
         genotypeLikelihoods = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations
-                .GENOTYPELIKELIHOODS.tag, "".intern()) as String
+                .GENOTYPELIKELIHOODS.tag, "") as String
         genotypeLikelihoodsHet = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations
-                .GENOTYPELIKELIHOODSHET.tag, "".intern()) as String
+                .GENOTYPELIKELIHOODSHET.tag, "") as String
         posteriorProbs = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations.POSTERIORPROBS
-                .tag, ""
-                .intern()) as String
+                .tag, "") as String
         genotypeQuality = genotypeContext.GQ as Integer
         haplotypeQualities = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations
                 .HAPLOTYPEQUALITIES
-                .tag, "".intern()) as String
-        phaseSet = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations.PHASESET.tag, "".intern
-                ()) as String
+                .tag, "") as String
+        phaseSet = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations.PHASESET.tag, "") as String
         phasingQuality = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations.PHASINGQUALITY
                 .tag, -1) as Integer
         alternateAlleleCounts = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations
-                .ALTERNATEALLELECOUNTS.tag, "".intern()) as String
+                .ALTERNATEALLELECOUNTS.tag, [])
         mappingQuality = genotypeContext.getExtendedAttribute(VcfConstants.VcfGenotypeAbbreviations.MAPPINGQUALITY
                 .tag, -1) as Integer
     }
 
-    Genotype(sample, genotype, depth, filters, likelihoods, genotypeLikelihoods,
+    /**
+     * Consturctor for creating Genotype that includes sample name
+     */
+    Genotype(sampleName, String genotype,readDepth, filter, likelihoods, genotypeLikelihoods,
              genotypeLikelihoodsHet, posteriorProbs, genotypeQuality, haplotypeQualities,
              phaseSet, phasingQuality, alternateAlleleCounts, mappingQuality) {
-        this.sampleName = sample
+        this.sampleName = sampleName
         this.genotype = genotype
-        this.readDepth = depth
-        this.filter = filters
+        this.readDepth = readDepth
+        this.filter = filter
         this.likelihoods = likelihoods
         this.genotypeLikelihoods = genotypeLikelihoods
         this.genotypeLikelihoodsHet = genotypeLikelihoodsHet
@@ -114,6 +157,14 @@ class Genotype {
         this.mappingQuality = mappingQuality
     }
 
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
     String getSampleName() {
         return sampleName
     }
@@ -162,7 +213,7 @@ class Genotype {
         return phasingQuality
     }
 
-    String getAlternateAlleleCounts() {
+    List<Integer> getAlternateAlleleCounts() {
         return alternateAlleleCounts
     }
 
@@ -170,6 +221,70 @@ class Genotype {
         return mappingQuality
     }
 
+    void setSampleName(String sampleName) {
+        this.sampleName = sampleName
+    }
+
+    void setGenotype(String genotype) {
+        this.genotype = genotype
+    }
+
+    void setReadDepth(Integer readDepth) {
+        this.readDepth = readDepth
+    }
+
+    void setFilter(String filter) {
+        this.filter = filter
+    }
+
+    void setLikelihoods(String likelihoods) {
+        this.likelihoods = likelihoods
+    }
+
+    void setGenotypeLikelihoods(String genotypeLikelihoods) {
+        this.genotypeLikelihoods = genotypeLikelihoods
+    }
+
+    void setGenotypeLikelihoodsHet(String genotypeLikelihoodsHet) {
+        this.genotypeLikelihoodsHet = genotypeLikelihoodsHet
+    }
+
+    void setPosteriorProbs(String posteriorProbs) {
+        this.posteriorProbs = posteriorProbs
+    }
+
+    void setGenotypeQuality(Integer genotypeQuality) {
+        this.genotypeQuality = genotypeQuality
+    }
+
+    void setHaplotypeQualities(String haplotypeQualities) {
+        this.haplotypeQualities = haplotypeQualities
+    }
+
+    void setPhaseSet(String phaseSet) {
+        this.phaseSet = phaseSet
+    }
+
+    void setPhasingQuality(Integer phasingQuality) {
+        this.phasingQuality = phasingQuality
+    }
+
+    void setAlternateAlleleCounts(List<Integer> alternateAlleleCounts) {
+        this.alternateAlleleCounts = alternateAlleleCounts
+    }
+
+    void setMappingQuality(Integer mappingQuality) {
+        this.mappingQuality = mappingQuality
+    }
+
+    Set<SampleVariant> getSampleVariants() {
+        return sampleVariants
+    }
+
+    void setSampleVariants(Set<SampleVariant> sampleVariants) {
+        this.sampleVariants = sampleVariants
+    }
+
     /**
      * Generates content in Variant Call Format (VCF) for a genotype.
      * @return the format string (defining the contained information) and genotype content in Variant Call Format
diff --git a/src/main/groovy/life/qbic/variantstore/model/Project.groovy b/src/main/groovy/life/qbic/variantstore/model/Project.groovy
new file mode 100644
index 0000000..ceafbed
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/model/Project.groovy
@@ -0,0 +1,64 @@
+package life.qbic.variantstore.model
+
+import com.fasterxml.jackson.annotation.JsonProperty
+import groovy.transform.EqualsAndHashCode
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.swagger.v3.oas.annotations.media.Schema
+
+@MappedEntity("project")
+@EqualsAndHashCode(includeFields=true, excludes = ["id"])
+@Schema(name="Project", description="A project")
+class Project {
+
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    Long id
+
+    /**
+     * The identifier of a project
+     */
+    String identifier
+
+    /**
+     * The associated cases of a project
+     */
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "project")
+    Set<Case> cases
+
+    Project() {
+    }
+
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    @Schema(description = "The associated cases")
+    @JsonProperty("cases")
+    Set<Case> getCases() {
+        return cases
+    }
+
+    void setCases(Set<Case> cases) {
+        this.cases = cases
+    }
+
+    @Schema(description = "The identifier")
+    @JsonProperty("identifier")
+    String getIdentifier() {
+        return identifier
+    }
+
+    void setIdentifier(String identifier) {
+        this.identifier = identifier
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/ReferenceGenome.groovy b/src/main/groovy/life/qbic/variantstore/model/ReferenceGenome.groovy
index 952e16e..129b0f0 100644
--- a/src/main/groovy/life/qbic/variantstore/model/ReferenceGenome.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/ReferenceGenome.groovy
@@ -1,6 +1,11 @@
 package life.qbic.variantstore.model
 
 import groovy.transform.EqualsAndHashCode
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -9,13 +14,44 @@ import io.swagger.v3.oas.annotations.media.Schema
  * @since: 1.0.0
  *
  */
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase.class)
 @EqualsAndHashCode
 @Schema(name="ReferenceGenome", description="A reference genome")
 class ReferenceGenome {
 
-    final String source
-    final String build
-    final String version
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    Long id
+
+    /**
+     * The source of a reference genome
+     */
+    String source
+
+    /**
+     * The build of a reference genome
+     */
+    String build
+
+    /**
+     * The version of a reference genome
+     */
+    String version
+
+    /**
+     * The variants associated with a reference genome
+     */
+    @Relation(value = Relation.Kind.MANY_TO_MANY, mappedBy = "referenceGenomes")
+    Set<Variant> variants
+
+    /**
+     * The Ensembl database instances associated with a reference genome
+     */
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "referencegenome")
+    Set<Ensembl> ensemblInstances
 
     ReferenceGenome(String source, String build, String version) {
         this.source = source
@@ -23,6 +59,22 @@ class ReferenceGenome {
         this.version = version
     }
 
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    Set<Ensembl> getEnsemblInstances() {
+        return ensemblInstances
+    }
+
+    void setEnsemblInstances(Set<Ensembl> ensemblInstances) {
+        this.ensemblInstances = ensemblInstances
+    }
+
     @Schema(description="The genome source")
     String getSource() {
         return source
@@ -42,4 +94,17 @@ class ReferenceGenome {
     String toString() {
         return "${build}.${version}"
     }
+
+    Set<Variant> getVariants() {
+        return variants
+    }
+
+    void setVariants(Set<Variant> variants) {
+        this.variants = variants
+    }
+
+    void addVariant(Variant variant){
+        if(variants==null) variants = [].toSet() as Set<Variant>
+        variants.add(variant)
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/Sample.groovy b/src/main/groovy/life/qbic/variantstore/model/Sample.groovy
index 9a3a064..a61b9ea 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Sample.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Sample.groovy
@@ -2,6 +2,13 @@ package life.qbic.variantstore.model
 
 import com.fasterxml.jackson.annotation.JsonProperty
 import groovy.transform.EqualsAndHashCode
+import groovy.transform.builder.Builder
+import io.micronaut.core.annotation.Creator
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.MappedProperty
+import io.micronaut.data.annotation.Relation
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -9,31 +16,74 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.0.0
  */
-@EqualsAndHashCode
+@MappedEntity
+@EqualsAndHashCode(includeFields=true, excludes = ["id"])
 @Schema(name="Sample", description="A biological sample")
+@Builder
 class Sample {
 
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The identifier of a given sample
      */
-    final String identifier
+    String identifier
     /**
      * The annotated cancer entity of a given sample
      */
-    final String cancerEntity
+    @MappedProperty("cancerentity")
+    String cancerEntity
     /**
      * The associated case (patient) identifier of a given sample
      */
-    final String caseId
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    Case entity
+    /**
+     * The association between sample, variant, vcfinfo, and genotypes
+     */
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "sample")
+    Set<SampleVariant> sampleVariants
 
-    Sample(String identifier, String cancerEntity, String caseId) {
+    @Creator
+    Sample() { }
+
+    Sample(String identifier, String cancerEntity) {
         this.identifier = identifier
         this.cancerEntity = cancerEntity
-        this.caseId = caseId
+    }
+
+    Sample(String identifier, String cancerEntity, String entityIdentifier) {
+        this.identifier = identifier
+        this.cancerEntity = cancerEntity
+        this.entity = new Case().setIdentifier(entityIdentifier)
+    }
+
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    void setEntity(Case entity) {
+        this.entity = entity
+    }
+
+    void setIdentifier(String identifier) {
+        this.identifier = identifier
+    }
+
+    void setCancerEntity(String cancerEntity) {
+        this.cancerEntity = cancerEntity
     }
 
     @Schema(description="The sample identifier")
-    @JsonProperty("sampleIdentifier")
+    @JsonProperty("identifier")
     String getIdentifier() {
         return identifier
     }
@@ -44,9 +94,15 @@ class Sample {
         return cancerEntity
     }
 
-    @Schema(description="The associated case identifier")
-    @JsonProperty("caseID")
-    String getCaseId() {
-        return caseId
+    Case getEntity() {
+        return entity
+    }
+
+    Set<SampleVariant> getSampleVariants() {
+        return sampleVariants
+    }
+
+    void setSampleVariants(Set<SampleVariant> sampleVariants) {
+        this.sampleVariants = sampleVariants
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/SampleVariant.groovy b/src/main/groovy/life/qbic/variantstore/model/SampleVariant.groovy
new file mode 100644
index 0000000..cfaaafd
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/model/SampleVariant.groovy
@@ -0,0 +1,102 @@
+package life.qbic.variantstore.model
+
+import io.micronaut.core.annotation.Nullable
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.MappedProperty
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.model.naming.NamingStrategies
+
+/**
+ * Association between samples, variants, genotypes and vcfInfo
+ *
+ * @since: 1.1.0
+ */
+@MappedEntity(value = "sample_variant", namingStrategy = NamingStrategies.LowerCase.class)
+class SampleVariant {
+
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
+
+    /**
+     * The samples
+     */
+    @MappedProperty(value = "sample_id")
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    Sample sample
+
+    /**
+     * The variants
+     */
+    @MappedProperty(value = "variant_id")
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    Variant variant
+
+    /**
+     * The vcf INFO
+     */
+    @Nullable
+    @MappedProperty(value = "vcfinfo_id")
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    VcfInfo vcfinfo
+
+    /**
+     * The genotypes
+     */
+    @Nullable
+    @MappedProperty(value = "genotype_id")
+    @Relation(value = Relation.Kind.MANY_TO_ONE)
+    Genotype genotype
+
+    SampleVariant(Sample sample, Variant variant, VcfInfo vcfinfo, Genotype genotype) {
+        this.sample = sample
+        this.variant = variant
+        this.vcfinfo = vcfinfo
+        this.genotype = genotype
+    }
+
+    Long getId() {
+        return id
+    }
+
+    void setSample(Sample sample) {
+        this.sample = sample
+    }
+
+    void setVariant(Variant variant) {
+        this.variant = variant
+    }
+
+    void setVcfinfo(VcfInfo vcfinfo) {
+        this.vcfinfo = vcfinfo
+    }
+
+    void setGenotype(Genotype genotype) {
+        this.genotype = genotype
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    Sample getSample() {
+        return sample
+    }
+
+    Variant getVariant() {
+        return variant
+    }
+
+    VcfInfo getVcfinfo() {
+        return vcfinfo
+    }
+
+    Genotype getGenotype() {
+        return genotype
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/SimpleVariant.groovy b/src/main/groovy/life/qbic/variantstore/model/SimpleVariant.groovy
deleted file mode 100644
index 70badb3..0000000
--- a/src/main/groovy/life/qbic/variantstore/model/SimpleVariant.groovy
+++ /dev/null
@@ -1,141 +0,0 @@
-package life.qbic.variantstore.model
-
-import com.fasterxml.jackson.annotation.JsonProperty
-import groovy.transform.EqualsAndHashCode
-import groovy.util.logging.Log4j2
-import htsjdk.variant.variantcontext.VariantContext
-
-@EqualsAndHashCode
-@Log4j2
-@Deprecated
-class SimpleVariant implements SimpleVariantContext{
-
-    //VariantContext context
-    String chromosome
-    BigInteger startPosition
-    BigInteger endPosition
-    String referenceAllele
-    String observedAllele
-    VcfInfo vcfInfo
-    List<Genotype> genotypes
-    String id
-    Boolean isSomatic
-    ArrayList consequences
-    String databaseId
-
-    SimpleVariant(VariantContext context) {
-        chromosome = context.contig
-        startPosition = context.start
-        endPosition = context.end
-        referenceAllele = context.reference.toString().replace("*", "")
-        observedAllele = context.alternateAlleles.join(',')
-        vcfInfo = new VcfInfo(context.getCommonInfo())
-        databaseId = context.getID()
-        List<Genotype> genotypes = []
-        consequences = null
-
-        context.getGenotypes().each { genotype ->
-            genotypes.add(new Genotype(genotype))
-        }
-
-        if (genotypes.empty) genotypes.add(new Genotype())
-        this.genotypes = genotypes
-    }
-
-    SimpleVariant() {
-
-    }
-
-    public addVariantContextAnnotation(VariantContext context, String annotationToolKeyword) {
-        consequences = context.getAttributeAsList(annotationToolKeyword)
-    }
-
-    @JsonProperty("chromosome")
-    @Override
-    String getChromosome() {
-        //context.contig
-        return chromosome
-    }
-
-    @JsonProperty("startPosition")
-    @Override
-    BigInteger getStartPosition() {
-        //context.start
-        return startPosition
-    }
-
-    @JsonProperty("endPosition")
-    @Override
-    BigInteger getEndPosition() {
-        //context.end
-        return endPosition
-    }
-
-    @JsonProperty("referenceAllele")
-    @Override
-    String getReferenceAllele() {
-        //context.reference.toString().replace("*", "")
-        return referenceAllele
-    }
-
-    @JsonProperty("databaseId")
-    @Override
-    String getDatabaseId() {
-        return databaseId
-        //context.getID()
-    }
-
-    @JsonProperty("observedAllele")
-    @Override
-    String getObservedAllele() {
-        //@TODO check that for release!
-        // this is a list, usually we would expect one observed allele, but it`s allowed to have multiple
-        //context.alternateAlleles.join(',')
-        return observedAllele
-    }
-
-    @JsonProperty("consequences")
-    @Override
-    List<Consequence> getConsequences() {
-        return consequences
-    }
-
-    @JsonProperty("info")
-    @Override
-    VcfInfo getVcfInfo() {
-        return vcfInfo
-    }
-
-    @Override
-    Boolean getIsSomatic() {
-        return isSomatic
-    }
-
-    @Override
-    String getId() {
-        return id
-    }
-
-    VariantContext getContext() {
-        return context
-    }
-
-    List<Genotype> getGenotypes() {
-        return genotypes
-    }
-
-    @Override
-    void setId(String id) {
-        this.id = id
-    }
-
-    @Override
-    void setIsSomatic(Boolean isSomatic) {
-        this.isSomatic = isSomatic
-    }
-
-    @Override
-    void setConsequences(ArrayList consequences) {
-        this.consequences = consequences
-    }
-}
\ No newline at end of file
diff --git a/src/main/groovy/life/qbic/variantstore/model/SimpleVariantContext.groovy b/src/main/groovy/life/qbic/variantstore/model/SimpleVariantContext.groovy
index f6e41a7..0de0804 100644
--- a/src/main/groovy/life/qbic/variantstore/model/SimpleVariantContext.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/SimpleVariantContext.groovy
@@ -17,21 +17,27 @@ interface SimpleVariantContext {
 
     String getObservedAllele()
 
-    List<Consequence> getConsequences()
+    Set<Consequence> getConsequences()
 
     List<Genotype> getGenotypes()
 
-    String getDatabaseId()
+    Set<VariantCaller> getVariantCaller()
 
-    Boolean getIsSomatic()
+    Set<SampleVariant> getSampleVariants()
 
-    String getId()
+    Set<ReferenceGenome> getReferenceGenomes()
+
+    String getDatabaseIdentifier()
+
+    boolean isSomatic()
+
+    String getIdentifier()
 
     VcfInfo getVcfInfo()
 
-    void setId(String id)
+    void setIdentifier(String id)
 
-    void setIsSomatic(Boolean somatic)
+    void setSomatic(boolean somatic)
 
-    void setConsequences(ArrayList consequences)
+    void setConsequences(Set<Consequence> consequences)
 }
\ No newline at end of file
diff --git a/src/main/groovy/life/qbic/variantstore/model/Software.groovy b/src/main/groovy/life/qbic/variantstore/model/Software.groovy
index 6488b65..49cb00f 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Software.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Software.groovy
@@ -1,12 +1,14 @@
 package life.qbic.variantstore.model
 
 import io.swagger.v3.oas.annotations.media.Schema
+import lombok.AllArgsConstructor
 
 /**
  * A tool used to gather information in the context of variants
  *
  * @since: 1.0.0
  */
+@AllArgsConstructor
 interface Software {
 
     /**
@@ -30,4 +32,4 @@ interface Software {
 
     @Schema(description="The corresponding digital object identifier")
     String getDoi()
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/TransactionStatus.groovy b/src/main/groovy/life/qbic/variantstore/model/TransactionStatus.groovy
index ef17d93..a759beb 100644
--- a/src/main/groovy/life/qbic/variantstore/model/TransactionStatus.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/TransactionStatus.groovy
@@ -15,21 +15,21 @@ import io.micronaut.data.model.naming.NamingStrategies
 class TransactionStatus{
 
     /**
-     * The name of a tool
+     * The database id
      */
     @Id
     @GeneratedValue
     Integer id
     /**
-     * The name of a tool
+     * The identifier
      */
-    String uuid
+    String identifier
     /**
-     * The name of a tool
+     * The file name
      */
     String fileName
     /**
-     * The name of a tool
+     * The file size
      */
     Float fileSize
     /**
@@ -44,8 +44,8 @@ class TransactionStatus{
         this.id = id
     }
 
-    void setUuid(String uuid) {
-        this.uuid = uuid
+    void setIdentifier(String uuid) {
+        this.identifier = uuid
     }
 
     void setFileName(String fileName) {
@@ -65,8 +65,8 @@ class TransactionStatus{
     }
 
     @JsonProperty("uuid")
-    String getUuid() {
-        return uuid
+    String getIdentifier() {
+        return identifier
     }
 
     @JsonProperty("fileName")
@@ -88,7 +88,7 @@ class TransactionStatus{
 /**
  * Possible status of a transaction
  *
- * @since: 1.11.0
+ * @since: 1.1.0
  */
 enum Status{
     started,
diff --git a/src/main/groovy/life/qbic/variantstore/model/TransactionStatusRepository.groovy b/src/main/groovy/life/qbic/variantstore/model/TransactionStatusRepository.groovy
deleted file mode 100644
index 8606ae8..0000000
--- a/src/main/groovy/life/qbic/variantstore/model/TransactionStatusRepository.groovy
+++ /dev/null
@@ -1,26 +0,0 @@
-package life.qbic.variantstore.model
-
-import io.micronaut.data.annotation.Id
-import io.micronaut.data.annotation.Repository
-import io.micronaut.data.jdbc.annotation.JdbcRepository
-import io.micronaut.data.model.query.builder.sql.Dialect
-import io.micronaut.data.repository.CrudRepository
-
-/**
- * A repository holding transcation status information
- *
- * @since: 1.0.0
- */
-@Repository("transactions")
-@JdbcRepository(dialect = Dialect.MYSQL)
-interface TransactionStatusRepository extends CrudRepository<TransactionStatus, Long> {
-
-    @Override
-    List<TransactionStatus> findAll()
-
-    List<TransactionStatus> findAllByUuid(String uuid)
-
-    Optional<TransactionStatus> findByUuid(String uuid)
-
-    void updateStatus(@Id Integer id, String status);
-}
\ No newline at end of file
diff --git a/src/main/groovy/life/qbic/variantstore/model/Variant.groovy b/src/main/groovy/life/qbic/variantstore/model/Variant.groovy
index 77d31d1..929e9b3 100644
--- a/src/main/groovy/life/qbic/variantstore/model/Variant.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/Variant.groovy
@@ -1,8 +1,15 @@
 package life.qbic.variantstore.model
 
+import com.fasterxml.jackson.annotation.JsonIgnore
 import com.fasterxml.jackson.annotation.JsonProperty
 import groovy.transform.EqualsAndHashCode
+import groovy.transform.builder.Builder
 import htsjdk.variant.variantcontext.VariantContext
+import io.micronaut.core.annotation.Creator
+import io.micronaut.data.annotation.*
+import io.micronaut.data.jdbc.annotation.JoinColumn
+import io.micronaut.data.jdbc.annotation.JoinTable
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -10,10 +17,18 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.0.0
  */
-@EqualsAndHashCode
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase.class)
+@EqualsAndHashCode(excludes = ["vcfInfo", "genotypes"])
 @Schema(name = "Variant", description = "A genomic variant")
+@Builder
 class Variant implements SimpleVariantContext, Comparable {
 
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The identifier (UUID) of a given variant
      */
@@ -21,44 +36,83 @@ class Variant implements SimpleVariantContext, Comparable {
     /**
      * The database identifier (i.e. DBSNP) of a given variant
      */
+    @MappedProperty("databaseidentifier")
     String databaseIdentifier
     /**
      * The chromosome of a given variant
      */
+    @MappedProperty("chr")
     String chromosome
     /**
      * The start position of a given variant
      */
+    @MappedProperty("start")
     BigInteger startPosition
     /**
      * The end position of a given variant
      */
+    @MappedProperty("end")
     BigInteger endPosition
     /**
      * The reference allele of a given variant
      */
+    @MappedProperty("ref")
     String referenceAllele
     /**
      * The observed allele of a given variant
      */
+    @MappedProperty("obs")
     String observedAllele
+    /**
+     * Describes whether a given variant is somatic
+     */
+    @MappedProperty("somatic")
+    boolean somatic
     /**
      * The consequences of a given variant
      */
-    ArrayList consequences
+    @JoinTable(name = "variant_consequence",
+            joinColumns = @JoinColumn(name = "variant_id"),
+            inverseJoinColumns = @JoinColumn(name = "consequence_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY)
+    Set<Consequence> consequences
     /**
-     * Describes whether a given variant is somatic
+     * The associated reference genomes of a given variant
+     */
+    @JoinTable(name = "referencegenome_variant",
+            joinColumns = @JoinColumn(name = "variant_id"),
+            inverseJoinColumns = @JoinColumn(name = "referencegenome_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = Relation.Cascade.UPDATE)
+    Set<ReferenceGenome> referenceGenomes
+    /**
+     * The variant detection software that called a given variant
      */
-    Boolean isSomatic
+    @JoinTable(name = "variantcaller_variant",
+            joinColumns = @JoinColumn(name = "variant_id"),
+            inverseJoinColumns = @JoinColumn(name = "variantcaller_id")
+    )
+    @Relation(value = Relation.Kind.MANY_TO_MANY, cascade = Relation.Cascade.UPDATE)
+    Set<VariantCaller> variantCaller
     /**
-     * The information given in a VCF file for a given variant
+     * The information given in a VCF file (INFO) for a given variant
      */
+    @Transient
     VcfInfo vcfInfo
     /**
      * The genotype information for a given variant
      */
+    @Transient
     List<Genotype> genotypes
+    /**
+     * The association between sample, variant, vcfinfo, and genotypes
+     */
+    @JsonIgnore
+    @Relation(value = Relation.Kind.ONE_TO_MANY, cascade = Relation.Cascade.ALL, mappedBy = "variant")
+    Set<SampleVariant> sampleVariants
 
+    @Creator
     Variant() {}
 
     // create variant object from htsjdk variant context, given annotation type
@@ -71,14 +125,20 @@ class Variant implements SimpleVariantContext, Comparable {
         vcfInfo = new VcfInfo(context.getCommonInfo())
         databaseIdentifier = context.getID()
         List<Genotype> genotypes = []
-        consequences = annotationType ? context.getAttributeAsList(annotationType) : null
+        consequences = annotationType ? context.getAttributeAsList(annotationType) as Set<Consequence> : null
         context.getGenotypes().each { genotype -> genotypes.add(new Genotype(genotype))
         }
-
-        if (genotypes.empty) genotypes.add(new Genotype())
         this.genotypes = genotypes
     }
 
+    void setId(Long id) {
+        this.id = id
+    }
+
+    Long getId() {
+        return id
+    }
+
     @Override
     int compareTo(Object other) {
         Variant v = (Variant) other
@@ -86,7 +146,7 @@ class Variant implements SimpleVariantContext, Comparable {
     }
 
     @Override
-    void setId(String identifier) {
+    void setIdentifier(String identifier) {
         this.identifier = identifier
     }
 
@@ -110,12 +170,8 @@ class Variant implements SimpleVariantContext, Comparable {
         this.observedAllele = observedAllele
     }
 
-    void setIsSomatic(Boolean isSomatic) {
-        this.isSomatic = isSomatic
-    }
-
-    void setConsequences(ArrayList consequences) {
-        this.consequences = consequences
+    void setSomatic(boolean somatic) {
+        this.somatic = somatic
     }
 
     void setVCF(VcfInfo vcfInfo) {
@@ -134,6 +190,37 @@ class Variant implements SimpleVariantContext, Comparable {
         this.genotypes = genotypes
     }
 
+    @Override
+    Set<ReferenceGenome> getReferenceGenomes() {
+        return referenceGenomes
+    }
+
+    @Override
+    Set<VariantCaller> getVariantCaller() {
+        return variantCaller
+    }
+
+    @Override
+    Set<SampleVariant> getSampleVariants() {
+        return sampleVariants
+    }
+
+    void setReferenceGenomes(Set<ReferenceGenome> referenceGenomes) {
+        this.referenceGenomes = referenceGenomes
+    }
+
+    void setConsequences(Set<Consequence> consequences) {
+        this.consequences = consequences
+    }
+
+    void setVariantCaller(Set<VariantCaller> variantCaller) {
+        this.variantCaller = variantCaller
+    }
+
+    void setSampleVariants(Set<SampleVariant> sampleVariants) {
+        this.sampleVariants = sampleVariants
+    }
+
     @Schema(description = "The chromosome")
     @JsonProperty("chromosome")
     @Override
@@ -172,21 +259,21 @@ class Variant implements SimpleVariantContext, Comparable {
     @Schema(description = "The consequences")
     @JsonProperty("consequences")
     @Override
-    List<Consequence> getConsequences() {
+    Set<Consequence> getConsequences() {
         return consequences
     }
 
     @Schema(description = "Is it a somatic variant?")
-    @JsonProperty("isSomatic")
+    @JsonProperty("somatic")
     @Override
-    Boolean getIsSomatic() {
-        return isSomatic
+    boolean isSomatic() {
+        return somatic
     }
 
     @Schema(description = "The variant identifier")
     @JsonProperty("identifier")
     @Override
-    String getId() {
+    String getIdentifier() {
         return identifier
     }
 
@@ -199,7 +286,7 @@ class Variant implements SimpleVariantContext, Comparable {
 
     @Schema(description = "The database identifier of this variant (if available)")
     @JsonProperty("databaseIdentifier")
-    String getDatabaseId() {
+    String getDatabaseIdentifier() {
         return databaseIdentifier
     }
 
@@ -220,4 +307,13 @@ class Variant implements SimpleVariantContext, Comparable {
                 "\t").append(vcfInfo)
     }
 
+    void addVariantCaller(VariantCaller callingSoftware){
+        if(variantCaller==null) variantCaller = [] as Set<VariantCaller>
+        variantCaller.add(callingSoftware)
+    }
+
+    void addReferenceGenome(ReferenceGenome refGenome){
+        if(referenceGenomes==null) referenceGenomes = [] as Set<ReferenceGenome>
+        referenceGenomes.add(refGenome)
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/VariantCaller.groovy b/src/main/groovy/life/qbic/variantstore/model/VariantCaller.groovy
index b06551e..37c7507 100644
--- a/src/main/groovy/life/qbic/variantstore/model/VariantCaller.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/VariantCaller.groovy
@@ -1,6 +1,11 @@
 package life.qbic.variantstore.model
 
 import groovy.transform.EqualsAndHashCode
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.model.naming.NamingStrategies
 import io.swagger.v3.oas.annotations.media.Schema
 
 /**
@@ -8,10 +13,17 @@ import io.swagger.v3.oas.annotations.media.Schema
  *
  * @since: 1.0.0
  */
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase)
 @EqualsAndHashCode
 @Schema(name="Variant Caller", description="A variant calling software")
 class VariantCaller implements Software {
 
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The name of a variant calling software
      */
@@ -25,12 +37,19 @@ class VariantCaller implements Software {
      */
     final String doi
 
+    @Relation(value = Relation.Kind.MANY_TO_MANY, mappedBy = "variantCaller")
+    Set<Variant> variants
+
     VariantCaller(String name, String version, String doi) {
         this.name = name
         this.version = version
         this.doi = doi
     }
 
+    Long getId() {
+        return id
+    }
+
     @Override
     String getName() {
         return name
@@ -45,4 +64,21 @@ class VariantCaller implements Software {
     String getDoi() {
         return doi
     }
+
+    Set<Variant> getVariants() {
+        return variants
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
+    void setVariants(Set<Variant> variants) {
+        this.variants = variants
+    }
+
+    void addVariant(Variant variant){
+        if(variants==null) variants = [].toSet() as Set<Variant>
+        variants.add(variant)
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/model/VcfInfo.groovy b/src/main/groovy/life/qbic/variantstore/model/VcfInfo.groovy
index c11c20a..9ef756b 100644
--- a/src/main/groovy/life/qbic/variantstore/model/VcfInfo.groovy
+++ b/src/main/groovy/life/qbic/variantstore/model/VcfInfo.groovy
@@ -1,7 +1,20 @@
 package life.qbic.variantstore.model
 
 import groovy.transform.EqualsAndHashCode
+import groovy.transform.builder.Builder
 import htsjdk.variant.variantcontext.CommonInfo
+import io.micronaut.core.annotation.Creator
+import io.micronaut.core.annotation.Nullable
+import io.micronaut.data.annotation.GeneratedValue
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.MappedEntity
+import io.micronaut.data.annotation.MappedProperty
+import io.micronaut.data.annotation.Relation
+import io.micronaut.data.annotation.TypeDef
+import io.micronaut.data.model.DataType
+import io.micronaut.data.model.naming.NamingStrategies
+import life.qbic.variantstore.util.FloatListStringConverter
+import life.qbic.variantstore.util.IntegerListStringConverter
 import life.qbic.variantstore.util.VcfConstants
 
 /**
@@ -9,97 +22,118 @@ import life.qbic.variantstore.util.VcfConstants
  *
  * @since: 1.0.0
  */
+@MappedEntity(namingStrategy = NamingStrategies.LowerCase.class)
 @EqualsAndHashCode
+@Builder
 class VcfInfo {
 
     // possible reserved sub-fields of the INFO column as defined in the VCF specification
     // http://samtools.github.io/hts-specs/ (VCF 4.1 and 4.2)
     //TODO deal with future releases?
+    /**
+     * The database id
+     */
+    @GeneratedValue
+    @Id
+    private Long id
     /**
      * The ancestral allele
      **/
-    final String ancestralAllele
+    String ancestralAllele
     /**
      * The allele count
      **/
-    final List<Integer> alleleCount
+    @TypeDef(type = DataType.INTEGER_ARRAY)
+    @MappedProperty(type = DataType.STRING, converter = IntegerListStringConverter.class)
+    List<Integer> alleleCount
     /**
      * The allele frequency
      **/
-    final List<Float> alleleFrequency
+    @TypeDef(type = DataType.FLOAT_ARRAY)
+    @MappedProperty(type = DataType.STRING, converter = FloatListStringConverter.class)
+    List<Float> alleleFrequency
     /**
      * The number of alleles
      **/
-    final Integer numberAlleles
+    Integer numberAlleles
     /**
      * The RMS base quality
      **/
-    final Integer baseQuality
+    Integer baseQuality
     /**
      * The cigar string describing how to align an alternate allele to the reference allele
      **/
-    final String cigar
+    String cigar
     /**
      * Membership in dbSNP ?
      **/
-    final Boolean dbSnp
+    boolean dbSnp
     /**
      * Membership in hapmap2 ?
      **/
-    final Boolean hapmapTwo
+    boolean hapmapTwo
     /**
      * Membership in hapmap3 ?
      **/
-    final Boolean hapmapThree
+    boolean hapmapThree
     /**
      * Membership in 1000 Genomes ?
      **/
-    final Boolean thousandGenomes
+    boolean thousandGenomes
     /**
      * The combined depth (DP) across samples
      **/
-    final Integer combinedDepth
+    Integer combinedDepth
     /**
      * The end position of the described variant
      **/
-    final Integer endPos
+    Integer endPos
     /**
      * The RMS mapping quality (MQ)
      **/
-    final Float rms
+    Float rms
     /**
      * The number of MAPQ==0 reads covering this record (MQ0)
      **/
-    final Integer mqZero
+    Integer mqZero
     /**
      * The strand bias at this position
      **/
-    final Integer strandBias
+    Integer strandBias
     /**
      * The number of samples with data
      **/
-    final Integer numberSamples
+    Integer numberSamples
     /**
      * Indicates that the record is a somatic mutation
      **/
-    final Boolean somatic
+    boolean somatic
     /**
      * Validated by follow-up experiment
      **/
-    final Boolean validated
+    boolean validated
+    /**
+     * The association between sample, variant, vcfinfo, and genotypes
+     */
+    @Relation(value = Relation.Kind.ONE_TO_MANY, mappedBy = "vcfinfo")
+    Set<SampleVariant> sampleVariants
+
+    @Creator
+    VcfInfo() {}
 
     VcfInfo(CommonInfo commonInfo) {
-        //TODO check if that isn`t AA (amino acid) annotation?
-        this.ancestralAllele = commonInfo.getAttributeAsString(VcfConstants.VcfInfoAbbreviations.ANCESTRALALLELE.tag, null)
-        this.alleleCount = commonInfo.getAttributeAsIntList(VcfConstants.VcfInfoAbbreviations.ALLELECOUNT.tag, -1)
-        this.alleleFrequency = commonInfo.getAttributeAsIntList(VcfConstants.VcfInfoAbbreviations.ALLELEFREQUENCY.tag, -1) as List<Float>
+        this.ancestralAllele = commonInfo.getAttributeAsString(VcfConstants.VcfInfoAbbreviations.ANCESTRALALLELE.tag,
+                "")
+        this.alleleCount = commonInfo.getAttributeAsList(VcfConstants.VcfInfoAbbreviations.ALLELECOUNT.tag) as List<Integer> ?: []
+        this.alleleFrequency = commonInfo.getAttributeAsList(VcfConstants.VcfInfoAbbreviations.ALLELEFREQUENCY.tag) as List<Float> ?: []
         this.numberAlleles = commonInfo.getAttributeAsInt(VcfConstants.VcfInfoAbbreviations.NUMBERALLELES.tag, -1)
-        this.baseQuality = commonInfo.getAttributeAsInt(VcfConstants.VcfInfoAbbreviations.BASEQUALITY.tag, -1)
-        this.cigar = commonInfo.getAttributeAsString(VcfConstants.VcfInfoAbbreviations.CIGAR.tag, null)
+        this.baseQuality = commonInfo.getAttributeAsInt(VcfConstants.VcfInfoAbbreviations.BASEQUALITY.tag, -1 )
+        this.cigar = commonInfo.getAttributeAsString(VcfConstants.VcfInfoAbbreviations.CIGAR.tag, '')
         this.dbSnp = commonInfo.getAttributeAsBoolean(VcfConstants.VcfInfoAbbreviations.DBSNP.tag, false)
         this.hapmapTwo = commonInfo.getAttributeAsBoolean(VcfConstants.VcfInfoAbbreviations.HAPMAPTWO.tag, false)
         this.hapmapThree = commonInfo.getAttributeAsBoolean(VcfConstants.VcfInfoAbbreviations.HAPMAPTHREE.tag, false)
-        this.thousandGenomes = commonInfo.getAttributeAsBoolean(VcfConstants.VcfInfoAbbreviations.THOUSANDGENOMES.tag, false)
+        this.thousandGenomes = commonInfo.getAttributeAsBoolean(VcfConstants.VcfInfoAbbreviations.THOUSANDGENOMES
+                .tag, false)
         this.combinedDepth = commonInfo.getAttributeAsInt(VcfConstants.VcfInfoAbbreviations.COMBINEDDEPTH.tag, -1)
         this.endPos = commonInfo.getAttributeAsInt(VcfConstants.VcfInfoAbbreviations.ENDPOS.tag, -1)
         this.rms = commonInfo.getAttributeAsDouble(VcfConstants.VcfInfoAbbreviations.RMS.tag, -1) as Float
@@ -111,9 +145,9 @@ class VcfInfo {
     }
 
     VcfInfo(String ancestralAllele, List<Integer> alleleCount, List<Float> alleleFrequency, Integer numberAlleles,
-            Integer baseQuality, String cigar, Boolean dbSnp, Boolean hapmapTwo, Boolean hapmapThree, Boolean
-                    thousandGenomes, Integer combinedDepth, Integer endPos, Float rms, Integer mqZero, Integer
-                    strandBias, Integer numberSamples, Boolean somatic, Boolean validated) {
+            Integer baseQuality, String cigar, boolean dbSnp, boolean hapmapTwo, boolean hapmapThree, boolean thousandGenomes,
+            Integer combinedDepth, Integer endPos, Float rms, Integer mqZero, Integer strandBias, Integer numberSamples,
+            boolean somatic, boolean validated) {
         this.ancestralAllele = ancestralAllele
         this.alleleCount = alleleCount
         this.alleleFrequency = alleleFrequency
@@ -134,6 +168,14 @@ class VcfInfo {
         this.validated = validated
     }
 
+    Long getId() {
+        return id
+    }
+
+    void setId(Long id) {
+        this.id = id
+    }
+
     String getAncestralAllele() {
         return ancestralAllele
     }
@@ -158,19 +200,19 @@ class VcfInfo {
         return cigar
     }
 
-    Boolean getDbSnp() {
+    boolean isDbSnp() {
         return dbSnp
     }
 
-    Boolean getHapmapTwo() {
+    boolean isHapmapTwo() {
         return hapmapTwo
     }
 
-    Boolean getHapmapThree() {
+    boolean isHapmapThree() {
         return hapmapThree
     }
 
-    Boolean getThousandGenomes() {
+    boolean isThousandGenomes() {
         return thousandGenomes
     }
 
@@ -182,7 +224,7 @@ class VcfInfo {
         return endPos
     }
 
-    Integer getRms() {
+    Float getRms() {
         return rms
     }
 
@@ -198,14 +240,29 @@ class VcfInfo {
         return numberSamples
     }
 
-    Boolean getSomatic() {
+    boolean isSomatic() {
         return somatic
     }
 
-    Boolean getValidated() {
+    boolean isValidated() {
         return validated
     }
 
+    void setAncestralAllele(@Nullable String ancestralAllele) {
+        this.ancestralAllele = ancestralAllele
+    }
+
+    void setCigar(@Nullable String cigar) {
+        this.cigar = cigar
+    }
+
+    void setAlleleCount(List<Integer> alleleCount) {
+        this.alleleCount = alleleCount
+    }
+
+    void setAlleleFrequency(List<Float> alleleFrequency) {
+        this.alleleFrequency = alleleFrequency
+    }
     /**
      * Generate representation in INFO column format.
      *
diff --git a/src/main/groovy/life/qbic/variantstore/model/dtos/SampleDTO.groovy b/src/main/groovy/life/qbic/variantstore/model/dtos/SampleDTO.groovy
new file mode 100644
index 0000000..dd46077
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/model/dtos/SampleDTO.groovy
@@ -0,0 +1,22 @@
+package life.qbic.variantstore.model.dtos
+
+import io.micronaut.core.annotation.Introspected
+
+/**
+ * A Sample Data Transfer Object.
+ *
+ * @since: 1.1.0
+ */
+@Introspected
+class SampleDTO {
+
+    private final String identifier
+
+    SampleDTO(String identifier) {
+        this.identifier = identifier
+    }
+
+    String getIdentifier() {
+        return identifier
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/model/dtos/VariantDTO.groovy b/src/main/groovy/life/qbic/variantstore/model/dtos/VariantDTO.groovy
new file mode 100644
index 0000000..75304c0
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/model/dtos/VariantDTO.groovy
@@ -0,0 +1,31 @@
+package life.qbic.variantstore.model.dtos
+
+import io.micronaut.core.annotation.Introspected;
+
+/**
+ * A Variant Data Transfer Object.
+ *
+ * @since: 1.1.0
+ */
+@Introspected
+class VariantDTO {
+
+    private String chromosome
+    private BigInteger startPosition
+
+    String getChromosome() {
+        return chromosome
+    }
+
+    void setChromosome(String chromosome) {
+        this.chromosome = chromosome
+    }
+
+    BigInteger getStartPosition() {
+        return startPosition
+    }
+
+    void setStartPosition(BigInteger startPosition) {
+        this.startPosition = startPosition
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/parser/EnsemblParser.groovy b/src/main/groovy/life/qbic/variantstore/parser/EnsemblParser.groovy
index c2ece53..baf1355 100644
--- a/src/main/groovy/life/qbic/variantstore/parser/EnsemblParser.groovy
+++ b/src/main/groovy/life/qbic/variantstore/parser/EnsemblParser.groovy
@@ -1,45 +1,44 @@
 package life.qbic.variantstore.parser
 
-import groovy.util.logging.Log4j2
 import htsjdk.tribble.AbstractFeatureReader
 import htsjdk.tribble.gff.Gff3Codec
 import htsjdk.tribble.gff.Gff3Feature
 import htsjdk.tribble.readers.LineIterator
+import life.qbic.variantstore.model.Ensembl
 import life.qbic.variantstore.model.Gene
 import life.qbic.variantstore.model.ReferenceGenome
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
 /**
  * A parser to process Ensembl GFF files holding gene information
  *
  * @since: 1.0.0
  */
-@Log4j2
 class EnsemblParser {
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(EnsemblParser.class);
+
     private final GENOME_REFERENCE_SOURCE_GRC = "Genome Reference Consortium"
 
     /**
-     * The genes
-     */
-    final List<Gene> genes
-    /**
-     * The reference genome
-     */
-    final ReferenceGenome referenceGenome
-    /**
-     * The Ensembl version
-     */
-    final Integer version
-    /**
-     * The date associated with this Ensembl file
+     * The metadata stored as {@EnsemblContext}
      */
-    final String date
+    final Ensembl ensemblContext
 
     EnsemblParser(File file) {
+        this.ensemblContext = parseGff3(file)
+    }
 
+    /**
+     * Parse file in Gff3 format
+     * @param file the Gff3 file
+     * @return the Ensembl object
+     */
+    Ensembl parseGff3(File file) {
         Gff3Codec codec = new Gff3Codec()
         AbstractFeatureReader<Gff3Feature, LineIterator> reader = AbstractFeatureReader.getFeatureReader(file
-                .absolutePath.toString(), null, codec, false);
+                .absolutePath.toString(), null, codec, false)
 
         // try to extract reference genome and Ensembl version
         def referenceMatch = (file.name =~ /(GRCh|hg)\d+/)
@@ -47,7 +46,7 @@ class EnsemblParser {
         String referenceGenome = ""
         Integer ensemblVersion = 0
         if (versionMatch.find()) {
-            def foundPattern = versionMatch[0][0].toString().split("\\.|v")
+            def foundPattern = versionMatch[0][0].toString().split("[.v]")
             referenceGenome = foundPattern.first()
             ensemblVersion = Integer.valueOf(foundPattern.last())
         }
@@ -56,7 +55,7 @@ class EnsemblParser {
             ensemblVersion = null
         }
 
-        def splittedLine = ""
+        def splitLine = ""
         def updateDate = ""
         def firstFound = false
         def secondFound = false
@@ -67,17 +66,16 @@ class EnsemblParser {
         for (final Gff3Feature feature : reader.iterator()) {
             if(feature.type.contains("gene")) {
                 numberOfGenes++
-
                 String geneId = feature.ID.split(":")[-1]
-                def bioType = feature.getAttribute("biotype")
+                def bioType = (feature.getAttribute("biotype") != null) && !feature.getAttribute("biotype").empty ? feature.getAttribute("biotype").get(0) : ''
                 def chromosome = feature.contig
                 def geneStart = feature.start as BigInteger
                 def geneEnd = feature.end as BigInteger
                 def strand = feature.strand.toString()
                 def symbol = feature.name
-                def version = feature.getAttribute("version") != null ? feature.getAttribute("version").toInteger(): -1
-                def description = (feature.getAttribute("description") != null) ? feature.getAttribute("description") : ''
-                def synonym = (feature.getAttribute("description") != null) && feature.getAttribute("description").contains("HGNC") ? feature.getAttribute("description").split("\\[").last().split("HGNC:").last().replace("]", "") : ''
+                def version = feature.getAttribute("version") != null && !feature.getAttribute("version").empty? feature.getAttribute("version").get(0).toInteger(): -1
+                def description = (feature.getAttribute("description") != null) && !feature.getAttribute("description").empty ? feature.getAttribute("description").get(0) : ''
+                def synonym = !description.empty && description.contains("HGNC") ? description.split("\\[").last().split("HGNC:").last().replace("]", "") : ''
                 def name = description.split("\\[").first().trim()
                 def synonyms = [synonym]
                 def geneDescription = description.trim()
@@ -92,7 +90,7 @@ class EnsemblParser {
         while ((line = bufferedReader.readLine()) != null)
         {
             if (line.startsWith("#!genome-build ")) {
-                splittedLine = line.split(" ")[-1]
+                splitLine = line.split(" ")[-1]
             }
             else if (line.startsWith("#!genebuild-last-updated")) {
                 updateDate = line.split(" ")[-1]
@@ -103,7 +101,7 @@ class EnsemblParser {
         }
 
         // determine reference genome version from Ensembl file
-        def (referenceGenomeFromFile, referenceGenomeVersion) = splittedLine.split("v|\\.")
+        def (referenceGenomeFromFile, referenceGenomeVersion) = splitLine.split("[v.]")
 
         try {
             assert referenceGenome == referenceGenomeFromFile
@@ -111,14 +109,22 @@ class EnsemblParser {
             println "Given reference genomes do not match: " + e.getMessage()
         }
 
-        log.info("Read $numberOfGenes genes from provided Ensembl file.")
+        LOGGER.info("Read $numberOfGenes genes from provided Ensembl file.")
 
-        this.genes = genes
         // if the reference genome is specified in the file under #!genome-build we will use this information
         def refernceGenomeToDB = referenceGenomeFromFile ? referenceGenomeFromFile : referenceGenome
-        this.referenceGenome = new ReferenceGenome(GENOME_REFERENCE_SOURCE_GRC, refernceGenomeToDB,
-        referenceGenomeVersion as String)
-        this.version = ensemblVersion ? ensemblVersion.toInteger() : -1
-        this.date = updateDate
+
+        Ensembl ensemblContext = new Ensembl()
+        ensemblContext.genes = genes
+        ensemblContext.referenceGenome = new ReferenceGenome(GENOME_REFERENCE_SOURCE_GRC, refernceGenomeToDB,
+                referenceGenomeVersion as String)
+        ensemblContext.version = ensemblVersion ? ensemblVersion.toInteger() : -1
+        ensemblContext.date = updateDate
+
+        return ensemblContext
+    }
+
+    Ensembl getEnsemblContext() {
+        return this.ensemblContext
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/parser/MetadataContext.groovy b/src/main/groovy/life/qbic/variantstore/parser/MetadataContext.groovy
index 2ff0aa1..41c1fc8 100644
--- a/src/main/groovy/life/qbic/variantstore/parser/MetadataContext.groovy
+++ b/src/main/groovy/life/qbic/variantstore/parser/MetadataContext.groovy
@@ -2,6 +2,7 @@ package life.qbic.variantstore.parser
 
 import life.qbic.variantstore.model.Annotation
 import life.qbic.variantstore.model.Case
+import life.qbic.variantstore.model.Project
 import life.qbic.variantstore.model.ReferenceGenome
 import life.qbic.variantstore.model.VariantCaller
 import life.qbic.variantstore.model.Sample
@@ -37,14 +38,19 @@ class MetadataContext {
      * The associated samples
      */
     final List<Sample> samples
+    /**
+     * The associated project
+     */
+    final Project project
 
-    MetadataContext(boolean isSomatic, VariantCaller variantCalling, Annotation variantAnnotation, ReferenceGenome referenceGenome, Case patient, List<Sample> samples) {
+    MetadataContext(boolean isSomatic, VariantCaller variantCalling, Annotation variantAnnotation, ReferenceGenome referenceGenome, Case patient, List<Sample> samples, Project project) {
         this.isSomatic = isSomatic
         this.variantCalling = variantCalling
         this.variantAnnotation = variantAnnotation
         this.referenceGenome = referenceGenome
         this.samples = samples
         this.patient = patient
+        this.project = project
     }
 
     boolean getIsSomatic() {
@@ -70,4 +76,8 @@ class MetadataContext {
     List<Sample> getSamples() {
         return samples
     }
+
+    Project getProject() {
+        return project
+    }
 }
diff --git a/src/main/groovy/life/qbic/variantstore/parser/MetadataReader.groovy b/src/main/groovy/life/qbic/variantstore/parser/MetadataReader.groovy
index a8c267e..e61b241 100644
--- a/src/main/groovy/life/qbic/variantstore/parser/MetadataReader.groovy
+++ b/src/main/groovy/life/qbic/variantstore/parser/MetadataReader.groovy
@@ -3,6 +3,7 @@ package life.qbic.variantstore.parser
 import groovy.json.JsonSlurper
 import life.qbic.variantstore.model.Annotation
 import life.qbic.variantstore.model.Case
+import life.qbic.variantstore.model.Project
 import life.qbic.variantstore.model.ReferenceGenome
 import life.qbic.variantstore.model.VariantCaller
 import life.qbic.variantstore.model.Sample
@@ -25,13 +26,22 @@ class MetadataReader {
     MetadataReader(File file) {
         def slurper = new JsonSlurper()
         def jsonContent = slurper.parse(file)
-        this.metadataContext = new MetadataContext(parseIsSomatic(jsonContent), parseCallingSoftware(jsonContent), parseAnnotationSoftware(jsonContent), parseReferenceGenome(jsonContent), parseCase(jsonContent), parseSample(jsonContent))
+
+        Case entity = parseCase(jsonContent)
+        List<Sample> samples = parseSample(jsonContent)
+        Project project = parseProject(jsonContent)
+        this.metadataContext = new MetadataContext(parseIsSomatic(jsonContent), parseCallingSoftware(jsonContent), parseAnnotationSoftware(jsonContent), parseReferenceGenome(jsonContent), entity, samples, project)
     }
 
     MetadataReader(String content) {
         def slurper = new JsonSlurper()
         def jsonContent = slurper.parseText(content)
-        this.metadataContext = new MetadataContext(parseIsSomatic(jsonContent), parseCallingSoftware(jsonContent), parseAnnotationSoftware(jsonContent), parseReferenceGenome(jsonContent), parseCase(jsonContent), parseSample(jsonContent))
+
+        Case entity = parseCase(jsonContent)
+        List<Sample> samples = parseSample(jsonContent)
+        Project project = parseProject(jsonContent)
+
+        this.metadataContext = new MetadataContext(parseIsSomatic(jsonContent), parseCallingSoftware(jsonContent), parseAnnotationSoftware(jsonContent), parseReferenceGenome(jsonContent), entity, samples, project)
     }
 
     MetadataContext getMetadataContext() {
@@ -48,9 +58,9 @@ class MetadataReader {
     }
 
     /**
-     * Parse information whether provided variants are somatic.
+     * Parse information on annotation software.
      * @param jsonContent the metadata content
-     * @return true if variants are somatic
+     * @return the annotation software
      */
     static Annotation parseAnnotationSoftware(jsonContent) {
         def name = jsonContent.variant_annotation.name as String
@@ -71,34 +81,48 @@ class MetadataReader {
     }
 
     /**
-     * Parse information whether provided variants are somatic.
+     * Parse information on reference genome.
      * @param jsonContent the metadata content
-     * @return true if variants are somatic
+     * @return the reference genome
      */
     static ReferenceGenome parseReferenceGenome(jsonContent) {
         return new ReferenceGenome(jsonContent.reference_genome.source, jsonContent.reference_genome.build, jsonContent.reference_genome.version)
     }
 
     /**
-     * Parse information whether provided variants are somatic.
+     * Parse information on associated case.
      * @param jsonContent the metadata content
-     * @return true if variants are somatic
+     * @return the associated case
      */
     static Case parseCase(jsonContent) {
-        return new Case(jsonContent.case.identifier)
+        Case newCase = new Case()
+        newCase.setIdentifier(jsonContent.case.identifier)
+        return newCase
     }
 
     /**
-     * Parse information whether provided variants are somatic.
+     * Parse information on associated samples.
      * @param jsonContent the metadata content
-     * @return true if variants are somatic
+     * @return the associated samples
      */
     static List<Sample> parseSample(jsonContent) {
         def samples = []
         jsonContent.samples.each { sample ->
             def cancerEntity = sample.cancerEntity ?: ''
-            samples.add(new Sample(sample.identifier, cancerEntity, jsonContent.case.identifier))
+            def newSample = new Sample(sample.identifier, cancerEntity)
+            samples.add(newSample)
         }
         return samples
     }
-}
\ No newline at end of file
+
+    /**
+     * Parse information on associated project.
+     * @param jsonContent the metadata content
+     * @return the associated project
+     */
+    static Project parseProject(jsonContent) {
+        Project project = new Project()
+        project.setIdentifier(jsonContent.project.identifier)
+        return project
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/parser/SimpleVCFReader.groovy b/src/main/groovy/life/qbic/variantstore/parser/SimpleVCFReader.groovy
index 6148959..175f53b 100644
--- a/src/main/groovy/life/qbic/variantstore/parser/SimpleVCFReader.groovy
+++ b/src/main/groovy/life/qbic/variantstore/parser/SimpleVCFReader.groovy
@@ -31,16 +31,16 @@ class SimpleVCFReader implements VCFReader{
      */
     private final VCFFileReader reader
 
-    public SimpleVCFReader(VCFFileReader reader) {
+    SimpleVCFReader(VCFFileReader reader) {
         this.reader = reader
         this.variantIterator = new VariantIterator(reader.iterator())
     }
 
-    public SimpleVCFReader(InputStream inputStream, String annotationType) {
+    SimpleVCFReader(InputStream inputStream, String annotationType) {
         this.variantIterator = new VariantIterator((CloseableIterator<VariantContext>) new VCFIteratorBuilder().open(inputStream).iterator(), annotationType)
     }
 
-    public SimpleVCFReader(InputStream inputStream) {
+    SimpleVCFReader(InputStream inputStream) {
         this.variantIterator = new VariantIterator((CloseableIterator<VariantContext>) new VCFIteratorBuilder().open(inputStream).iterator())
     }
 
@@ -58,4 +58,4 @@ class SimpleVCFReader implements VCFReader{
             ioe.printStackTrace()
         }
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/CaseRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/CaseRepository.groovy
new file mode 100644
index 0000000..1eb205b
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/CaseRepository.groovy
@@ -0,0 +1,112 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Case
+
+/**
+ * The case repository ('entity' database table)
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface CaseRepository extends CrudRepository<Case, Long> {
+
+    @NonNull
+    @Override
+    List<Case> findAll()
+
+    Optional<Case> findById(Long id)
+
+    List<Case> list()
+
+    List<Case> findByIdentifier(String identifier)
+
+    /**
+     * Search cases by gene symbol and consequence type
+     * @param geneSymbol the gene symbol
+     * @param consequenceType the consequence type
+     * @return list of cases
+     */
+    @Query("""select distinct entity.id, project_id from entity INNER JOIN sample ON entity
+             .id = sample.entity_id INNER JOIN sample_variant ON sample.id = sample_variant.sample_id INNER
+             JOIN variant ON variant.id = sample_variant.variant_id INNER JOIN variant_consequence ON
+             variant_consequence.variant_id = variant.id INNER JOIN consequence on variant_consequence
+             .consequence_id = consequence.id WHERE consequence.type=:consequenceType AND consequence
+             .genesymbol=:geneSymbol""")
+    @Join(value = "sample", type = Join.Type.INNER)
+    @Join(value = "sample_variant", type = Join.Type.INNER)
+    @Join(value = "variant", type = Join.Type.INNER)
+    @Join(value = "variant_consequence", type = Join.Type.INNER)
+    @Join(value = "consequence", type = Join.Type.INNER)
+    List<Case> searchByGeneSymbolAndConsequenceType(String geneSymbol, String consequenceType)
+
+
+    /**
+     * Search cases by gene symbol
+     * @param geneSymbol the gene symbol
+     * @return list of cases
+     */
+    @Query("""select distinct entity.id, project_id from entity INNER JOIN sample ON entity.id = sample.entity_id 
+INNER JOIN sample_variant ON sample.id = sample_variant.sample_id INNER JOIN variant ON variant.id = 
+sample_variant.variant_id INNER JOIN variant_consequence ON variant_consequence.variant_id = variant.id 
+INNER JOIN consequence on variant_consequence.consequence_id = consequence.id WHERE consequence.genesymbol= 
+:geneSymbol""")
+    @Join(value = "sample", type = Join.Type.INNER)
+    @Join(value = "sample_variant", type = Join.Type.INNER)
+    @Join(value = "variant", type = Join.Type.INNER)
+    @Join(value = "variant_consequence", type = Join.Type.INNER)
+    @Join(value = "consequence", type = Join.Type.INNER)
+    List<Case> searchByGeneSymbol(String geneSymbol)
+
+    /**
+     * Search cases by chromosome and variant withing a specific genomic position range
+     * @param chromosome the chromosome
+     * @param startPosition the start position of the genomic range
+     * @param endPosition the end position of the genomic range
+     * @return list of cases
+     */
+    @Query("""select distinct entity.id, project_id from entity INNER JOIN sample ON entity.id = 
+sample.entity_id INNER JOIN sample_variant ON sample.id = sample_variant.sample_id INNER JOIN
+ variant ON variant.id = sample_variant.variant_id where variant.chr= :chromosome AND variant.start>= :startPosition AND variant.end<= :endPosition""")
+    @Join(value = "sample", type = Join.Type.INNER)
+    @Join(value = "sample_variant", type = Join.Type.INNER)
+    @Join(value = "variant", type = Join.Type.INNER)
+    List<Case> searchByChromosomeAndStartPositionRange(String chromosome, BigInteger startPosition, BigInteger endPosition)
+
+    /**
+     * Search cases by consequence type
+     * @param consequenceType the consequence type
+     * @return list of cases
+     */
+    @Query("""select distinct entity.id, project_id, type from entity INNER JOIN sample ON entity.id = sample.entity_id INNER JOIN sample_variant ON sample.id = sample_variant.sample_id INNER JOIN variant ON variant.id = sample_variant.variant_id INNER JOIN variant_consequence ON variant_consequence.variant_id = variant.id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id where type= :consequenceType""")
+    @Join(value = "sample", type = Join.Type.INNER)
+    @Join(value = "sample_variant", type = Join.Type.INNER)
+    @Join(value = "variant", type = Join.Type.INNER)
+    @Join(value = "variant_consequence", type = Join.Type.INNER)
+    @Join(value = "consequence", type = Join.Type.INNER)
+    List<Case> searchByConsequenceType(String consequenceType)
+
+    /**
+     * Search cases by chromosome.
+     * @param chromosome the chromosome
+     * @return list of cases
+     */
+    @Query("""select distinct * from entity INNER JOIN sample ON entity.id =
+    sample.entity_id INNER JOIN sample_variant ON sample.id = sample_variant.sample_id INNER JOIN
+            variant ON variant.id = sample_variant.variant_id where variant.chr= :chromosome""")
+    @Join(value = "sample", type = Join.Type.INNER)
+    @Join(value = "sample_variant", type = Join.Type.INNER)
+    @Join(value = "variant", type = Join.Type.INNER)
+    List<Case> searchByChromosome(String chromosome)
+
+    @Query("INSERT INTO entity(identifier, project_id) VALUES (:identifier, :project) ON CONFLICT DO NOTHING")
+    void insertIgnore(Case entity)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/ConsequenceRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/ConsequenceRepository.groovy
new file mode 100644
index 0000000..40d0481
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/ConsequenceRepository.groovy
@@ -0,0 +1,91 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Join
+import life.qbic.variantstore.model.Consequence
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.jdbc.runtime.JdbcOperations
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import jakarta.inject.*
+
+/**
+ * The Consequence repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+abstract class ConsequenceRepository implements CrudRepository<Consequence, Long>{
+
+    @Inject
+    @Named("variantstore-postgres")
+    JdbcOperations jdbcOperations
+
+    @Override
+    abstract Optional<Consequence> findById(Long id)
+
+    abstract List<Consequence> saveAll(Set<Consequence> consequences)
+
+    /**
+     * List all consequences with associated genes
+     * @return list of consequences
+     */
+    @Join(value = "genes", type = Join.Type.LEFT_FETCH)
+    abstract List<Consequence> list()
+
+    /**
+     * Find consequence with specified properties
+     */
+    abstract Optional<Consequence> find(String allele, String codingChange, String transcriptId, Integer transcriptVersion,
+                                        String type, String bioType, boolean canonical, String aaChange, String cdnaPosition,
+                                        String cdsPosition, String proteinPosition, Integer proteinLength, Integer cdnaLength,
+                                        Integer cdsLength, String impact, String exon, String intron, Integer strand,
+                                        String geneSymbol, String featureType, Integer distance, String warnings)
+
+    /**
+     * Find consequence with specified properties and return with associated annotations
+     */
+    @Join(value = "annotations", type = Join.Type.LEFT_FETCH)
+    abstract Optional<Consequence> retrieve(String allele, String codingChange, String transcriptId, Integer transcriptVersion,
+                                            String type, String bioType, boolean canonical, String aaChange, String cdnaPosition,
+                                            String cdsPosition, String proteinPosition, Integer proteinLength, Integer cdnaLength,
+                                            Integer cdsLength, String impact, String exon, String intron, Integer strand,
+                                            String geneSymbol, String featureType, Integer distance, String warnings)
+
+    void insertMany(List<Consequence> consequences) {
+        def sqlStatement = """INSERT INTO consequence (allele, codingchange, transcriptid, 
+transcriptversion, type, biotype, canonical, aachange, cdnaposition, cdsposition, proteinposition, proteinlength, 
+cdnalength, cdslength, impact, exon, intron, strand, genesymbol, featuretype, distance, warnings) VALUES (?,
+ ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?) ON CONFLICT DO NOTHING"""
+        jdbcOperations.prepareStatement(sqlStatement,  { statement ->
+            consequences.each {
+                statement.setString(1, it.allele)
+                statement.setString(2, it.codingChange)
+                statement.setString(3, it.transcriptId)
+                statement.setInt(4, it.transcriptVersion)
+                statement.setString(5, it.type)
+                statement.setString(6, it.bioType)
+                statement.setBoolean(7, it.canonical)
+                statement.setString(8, it.aaChange)
+                statement.setString(9, it.cdnaPosition)
+                statement.setString(10, it.cdsPosition)
+                statement.setString(11, it.proteinPosition)
+                statement.setInt(12, it.proteinLength)
+                statement.setInt(13, it.cdnaLength)
+                statement.setInt(14, it.cdsLength)
+                statement.setString(15, it.impact)
+                statement.setString(16, it.exon)
+                statement.setString(17, it.intron)
+                statement.setInt(18, it.strand)
+                statement.setString(19, it.geneSymbol)
+                statement.setString(20, it.featureType)
+                statement.setInt(21, it.distance)
+                statement.setString(22, it.warnings)
+                statement.addBatch()
+            }
+            statement.executeBatch()
+        })
+    }
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/EnsemblRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/EnsemblRepository.groovy
new file mode 100644
index 0000000..6506f21
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/EnsemblRepository.groovy
@@ -0,0 +1,38 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.NamingStrategy
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.naming.NamingStrategies
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Ensembl
+import life.qbic.variantstore.model.ReferenceGenome
+
+
+/**
+ * The Ensembl repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+@NamingStrategy(NamingStrategies.LowerCase.class)
+interface EnsemblRepository extends CrudRepository<Ensembl, Long> {
+
+    @Override
+    Optional<Ensembl> findById(Long id)
+
+    @Join(value = "genes", type = Join.Type.LEFT_FETCH, alias = "genes")
+    Optional<Ensembl> find(Integer version, String date, ReferenceGenome referenceGenome)
+
+    /**
+     * Get the highest Ensembl version available in the Store
+     * @return the highest version
+     */
+    @Query("SELECT MAX(version) FROM ensembl")
+    Integer fetchMaxVersion()
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/GeneRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/GeneRepository.groovy
new file mode 100644
index 0000000..523e10c
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/GeneRepository.groovy
@@ -0,0 +1,70 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.annotation.Where
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.jdbc.runtime.JdbcOperations
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Gene
+import jakarta.inject.*
+
+/**
+ * The Gene repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+abstract class GeneRepository implements CrudRepository<Gene, Long>{
+
+    @Inject
+    @Named("variantstore-postgres")
+    JdbcOperations jdbcOperations
+
+    abstract Set<Gene> findAll()
+
+    abstract Optional<Gene> findById(Long id)
+
+    abstract Optional<Gene> findByGeneId(String geneId)
+
+    abstract Optional<Gene> find(String bioType, String chromosome, String symbol, String name, BigInteger geneStart, BigInteger geneEnd,
+                                 String geneId, String description, String strand, Integer version, List<String> synonyms)
+
+    abstract Set<Gene> searchByGeneId(String geneId)
+
+    @Join(value = "ensembles", type = Join.Type.INNER, alias = "ensembl")
+    @Where("ensembl.version = :ensemblVersion")
+    abstract Set<Gene> searchByGeneId(String geneId, int ensemblVersion)
+
+    /**
+     * Find all genes that have a variant associated with a specific sample identifier
+     * @param sampleIdentifier the sample identifier
+     * @return a set of Gene objects
+     */
+    @Query("SELECT gene.* FROM gene INNER JOIN gene_consequence ON gene.id = gene_consequence.gene_id INNER JOIN consequence on gene_consequence.consequence_id = consequence.id INNER JOIN variant_consequence on variant_consequence.consequence_id = consequence.id INNER JOIN variant ON variant_consequence.variant_id = variant.id INNER JOIN sample_variant ON sample_variant.variant_id = variant.id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE sample.identifier= :sampleIdentifier")
+    abstract Set<Gene> getForSampleIdentifier(String sampleIdentifier)
+
+    void insertMany(List<Gene> genes) {
+        def sqlStatement = """WITH maybe_new AS (INSERT INTO gene (bioType, chromosome, symbol, name, genestart, geneend, geneid, description, strand, version, synonyms) VALUES (?, ?, ?, ?, ?, ?, ?, ?, ?, ?, ?) ON CONFLICT DO NOTHING"""
+        jdbcOperations.prepareStatement(sqlStatement) { statement ->
+            genes.each {
+                statement.setString(1, it.bioType)
+                statement.setString(2, it.chromosome)
+                statement.setString(3, it.symbol)
+                statement.setString(4, it.name)
+                statement.setBigDecimal(5, it.geneStart as BigDecimal)
+                statement.setBigDecimal(6, it.geneEnd as BigDecimal)
+                statement.setString(7, it.geneId)
+                statement.setString(8, it.description)
+                statement.setString(9, it.strand)
+                statement.setInt(10, it.version)
+                statement.setString(11, it.synonyms)
+                statement.addBatch()
+            }
+            statement.executeBatch()
+        }
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/GenotypeRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/GenotypeRepository.groovy
new file mode 100644
index 0000000..21eea0b
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/GenotypeRepository.groovy
@@ -0,0 +1,27 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Genotype
+
+/**
+ * The Genotype repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface GenotypeRepository extends CrudRepository<Genotype, Long>{
+
+    @Override
+    Optional<Genotype> findById(Long id)
+
+    Optional<Genotype> find(String genotype, Integer readDepth, String filter, String likelihoods, String genotypeLikelihoods, String genotypeLikelihoodsHet,
+                            String posteriorProbs, Integer genotypeQuality, String haplotypeQualities, String phaseSet, Integer phasingQuality,
+                            List<Integer> alternateAlleleCounts, Integer mappingQuality)
+
+    List<Genotype> list()
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/MariaDbTransactionStatusRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/MariaDbTransactionStatusRepository.groovy
new file mode 100644
index 0000000..67d4060
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/MariaDbTransactionStatusRepository.groovy
@@ -0,0 +1,20 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.context.annotation.Replaces
+import io.micronaut.context.annotation.Requires
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+
+/**
+ * A MariaDB-based repository holding transaction status information
+ *
+ * @since: 1.1.0
+ */
+@Requires(property = "database.specifier", value = "variantstore-mariadb")
+@Replaces(TransactionStatusRepository.class)
+@Repository('transactions-mariadb')
+@JdbcRepository(dialect = Dialect.MYSQL)
+interface MariaDbTransactionStatusRepository extends TransactionStatusRepository {
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/ProjectRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/ProjectRepository.groovy
new file mode 100644
index 0000000..79c1d6f
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/ProjectRepository.groovy
@@ -0,0 +1,41 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.data.annotation.NamingStrategy
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.naming.NamingStrategies
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Project
+
+/**
+ * The Project repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+@NamingStrategy(NamingStrategies.LowerCase.class)
+interface ProjectRepository extends CrudRepository<Project, Long> {
+
+    @NonNull
+    @Override
+    List<Project> findAll()
+
+    @Override
+    Optional<Project> findById(Long id)
+
+    Optional<Project> findByIdentifier(String identifier)
+
+    List<Project> list()
+
+    /**
+     * Insert project to database with ignoring conflicts
+     * @param project the project to insert
+     */
+    @Query("INSERT INTO PROJECT(identifier) VALUES (identifier) ON CONFLICT DO NOTHING")
+    void insertIgnore(Project project)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/ReferenceGenomeRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/ReferenceGenomeRepository.groovy
new file mode 100644
index 0000000..5e70017
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/ReferenceGenomeRepository.groovy
@@ -0,0 +1,39 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import io.micronaut.core.annotation.NonNull
+import life.qbic.variantstore.model.ReferenceGenome
+
+/**
+ * The ReferenceGenome repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface ReferenceGenomeRepository extends CrudRepository<ReferenceGenome, Long> {
+
+
+    @Override
+    Optional<ReferenceGenome> findById(Long id)
+
+    @NonNull
+    @Override
+    List<ReferenceGenome> findAll()
+
+    List<ReferenceGenome> list()
+
+    Optional<ReferenceGenome> find(String source, String build, String version)
+
+    /**
+     * Insert reference genome to the database and ignore conflicts
+     * @param referenceGenome the reference genome to insert
+     */
+    @Query("INSERT INTO referencegenome(source, build, version) VALUES (:source, :build, :version) ON CONFLICT DO NOTHING")
+    void insertIgnore(ReferenceGenome referenceGenome)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/SampleRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/SampleRepository.groovy
new file mode 100644
index 0000000..aac4c4c
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/SampleRepository.groovy
@@ -0,0 +1,52 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.jdbc.runtime.JdbcOperations
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Sample
+import jakarta.inject.*
+
+/**
+ * The Sample repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+abstract class SampleRepository implements CrudRepository<Sample, Long> {
+
+    @Inject
+    @Named("variantstore-postgres")
+    JdbcOperations jdbcOperations
+
+    @NonNull
+    @Override
+    abstract List<Sample> findAll()
+
+    abstract Optional<Sample> findById(Long id)
+
+    @NonNull
+    abstract List<Sample> findByIdentifier(String identifier)
+
+    abstract List<Sample> findByCancerEntity(String cancerEntity)
+
+    /**
+     * Insert multiple samples
+     * @param samples insert multiple samples in a batch and ignore conflicts while returing database id
+     */
+    void insertMany(List<Sample> samples) {
+        def sqlStatement = """INSERT INTO sample (identifier, cancerEntity, entity_id) VALUES (?, ?, ?) ON DUPLICATE (identifier, cancerEntity) DO NOTHING RETURNING id"""
+        jdbcOperations.prepareStatement(sqlStatement) { statement ->
+            samples.each {
+                statement.setString(1, it.identifier)
+                statement.setString(2, it.cancerEntity)
+                statement.setLong(3, it.entity.id)
+                statement.addBatch()
+            }
+            statement.executeBatch()
+        }
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/SampleVariantRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/SampleVariantRepository.groovy
new file mode 100644
index 0000000..ab2a623
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/SampleVariantRepository.groovy
@@ -0,0 +1,41 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Genotype
+import life.qbic.variantstore.model.Sample
+import life.qbic.variantstore.model.SampleVariant
+import life.qbic.variantstore.model.Variant
+import life.qbic.variantstore.model.VcfInfo
+
+/**
+ * The SampleVariant repository to store associations (many-to-many) between Sample, Variant, Genotype, and VcfInfo
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface SampleVariantRepository extends CrudRepository<SampleVariant, Long> {
+
+    @Override
+    Optional<SampleVariant> findById(Long id)
+
+    @NonNull
+    @Override
+    List<SampleVariant> findAll()
+
+    /**
+     * Retrieve all SampleVariant entities with Genotype information
+     * @return List of SampleVariant objects
+     */
+    @Join(value = "genotype", type = Join.Type.FETCH)
+    List<SampleVariant> list()
+
+    Optional<SampleVariant> findBySampleAndVariantAndVcfinfoAndGenotype(Sample sample, Variant variant, VcfInfo vcfInfo,
+                                                                        Genotype genotype)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/TransactionStatusRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/TransactionStatusRepository.groovy
new file mode 100644
index 0000000..f96937c
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/TransactionStatusRepository.groovy
@@ -0,0 +1,32 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.context.annotation.Requires
+import io.micronaut.data.annotation.Id
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.TransactionStatus
+
+/**
+ * A PostgreSQL-based repository holding transaction status information
+ *
+ * @since: 1.0.0
+ */
+@Repository('transactions')
+@Requires(notEquals = "database.specifier", value = "variantstore-mariadb")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface TransactionStatusRepository extends CrudRepository<TransactionStatus, Long> {
+
+    @Override
+    List<TransactionStatus> findAll()
+
+    Optional<TransactionStatus> findByIdentifier(String identifier)
+
+    /**
+     * Update transaction status based on database id
+     * @param id the transaction database id
+     * @param status the transaction status to set
+     */
+    void updateStatus(@Id Integer id, String status);
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/VariantAnnotationRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/VariantAnnotationRepository.groovy
new file mode 100644
index 0000000..f599303
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/VariantAnnotationRepository.groovy
@@ -0,0 +1,46 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.NonNull
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.jdbc.runtime.JdbcOperations
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Annotation
+import jakarta.inject.Inject
+
+/**
+ * The VariantAnnotation repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface VariantAnnotationRepository extends CrudRepository<Annotation, Long> {
+
+    @Inject
+    JdbcOperations jdbcOperations
+
+    @NonNull
+    @Override
+    List<Annotation> findAll()
+
+    Optional<Annotation> find(String name, String version, String doi)
+
+    /**
+     * Retrieve all Annotation objects wth Consequence associations
+     * @return A list of Annotation  objects
+     */
+    @Join(value = "consequences", type = Join.Type.FETCH)
+    List<Annotation> list()
+
+    /**
+     * Insert annotation software object to database while ignoring conflicts
+     * @param annotation the annotation software object to insert
+     */
+    @Query("INSERT INTO annotationsoftware(name, version, doi) VALUES (:name, :version, :doi) ON CONFLICT DO NOTHING")
+    void insertIgnore(Annotation annotation)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/VariantCallerRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/VariantCallerRepository.groovy
new file mode 100644
index 0000000..0092aa3
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/VariantCallerRepository.groovy
@@ -0,0 +1,32 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.VariantCaller
+
+/**
+ * The VariantCaller repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface VariantCallerRepository extends CrudRepository<VariantCaller, Long> {
+
+    Optional<VariantCaller> findById(Long id)
+
+    List<VariantCaller> list()
+
+    Optional<VariantCaller> find(String name, String version, String doi)
+
+    /**
+     * Insert variant calling software to database
+     * @param variantCaller the variant calling software to insert
+     */
+    @Query("INSERT INTO variantcaller(name, version, doi) VALUES (:name, :version, :doi) ON CONFLICT DO NOTHING")
+    void insertIgnore(VariantCaller variantCaller)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/VariantRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/VariantRepository.groovy
new file mode 100644
index 0000000..e10de4f
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/VariantRepository.groovy
@@ -0,0 +1,292 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.data.annotation.Join
+import io.micronaut.data.annotation.NamingStrategy
+import io.micronaut.data.annotation.Query
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.annotation.Where
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.naming.NamingStrategies
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.Variant
+
+/**
+ * The Variant repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+@NamingStrategy(NamingStrategies.LowerCase.class)
+interface VariantRepository extends CrudRepository<Variant, Long> {
+
+    @Override
+    List<Variant> findAll()
+
+    Set<Variant> findByIdentifier(String identifier)
+
+    List<Variant> list()
+
+    /**
+     * Find variant based on properties and return with consequence associations
+     * @param chromosome the chromosome
+     * @param startPosition the genomic start position
+     * @param databaseIdentifier the database identifier
+     * @param endPosition the genomic end position
+     * @param referenceAllele the reference allele
+     * @param observedAllele the observed allele
+     * @param somatic information whether the variant is somatic
+     * @return the found variant or empty Optional
+     */
+    @Join(value = "consequences", type = Join.Type.LEFT_FETCH, alias = "consequence")
+    Optional<Variant> find(String chromosome, BigInteger startPosition, String databaseIdentifier,
+                           BigInteger endPosition, String referenceAllele, String observedAllele, boolean somatic)
+
+    /**
+     * Find variant based on properties for Beacon request
+     * @param chromosome the chromosome
+     * @param startPosition the genomic start position
+     * @param referenceAllele the reference allele
+     * @param observedAllele the observed allele
+     * @param build the reference genome
+     * @return a set of found variants
+     */
+    @Query("SELECT * FROM variant WHERE chr = :chromosome and start = :startPosition and ref LIKE :referenceAllele and obs LIKE :observedAllele")
+    Set<Variant> findForBeacon(String chromosome, BigInteger startPosition, String referenceAllele,
+                                String observedAllele, String build)
+
+    /**
+     * Search variant based on properties and return with reference genome associations
+     * @param databaseIdentifier the database identifier
+     * @param chromosome the chromosome
+     * @param startPosition the genomic start position
+     * @param endPosition the genomic end position
+     * @param referenceAllele the reference allele
+     * @param observedAllele the observerd allele
+     * @param somatic information whether variant is somatic
+     * @return the found Variant or empty Optional
+     */
+    @Join(value = "referenceGenomes", type = Join.Type.LEFT_FETCH, alias = "referencegenome")
+    Optional<Variant> search(String databaseIdentifier, String chromosome, BigInteger startPosition,
+                             BigInteger endPosition, String referenceAllele, String observedAllele, boolean somatic)
+
+    // withConsequences and genotypes and vcfinfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.*, genotype.* FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN genotype ON genotype.id=sample_variant.genotype_id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE referencegenome.build = :referenceGenome AND annotationsoftware.name = :annotationSoftware")
+    List<Variant> getAllWithConsequencesAndGenos(String annotationSoftware, String referenceGenome)
+
+    //withConsequences and vcfInfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.* FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id WHERE referencegenome.build = :referenceGenome AND annotationsoftware.name = :annotationSoftware")
+    List<Variant> getAllWithConsequencesAndVcfInfo(String annotationSoftware, String referenceGenome)
+
+    // withConsequences and no vcfinfo
+    @Query("SELECT variant.*, consequence.* FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id WHERE referencegenome.build = :referenceGenome AND annotationsoftware.name = :annotationSoftware")
+    List<Variant> getAllWithConsequencesAndNoVcfInfo(String annotationSoftware, String referenceGenome)
+
+    // withVcInfo
+    @Query("SELECT variant.*, vcfinfo.* FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id WHERE referencegenome.build = :referenceGenome")
+    List<Variant> getAllWithVcfInfo(String referenceGenome)
+
+    // only based on refGenome
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> findByChromosomeAndStartPosition(String chromosome, BigInteger startPosition, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.genotype", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> searchByChromosomeAndStartPosition(String chromosome, BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    //withConsequences and vcfInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> queryByChromosomeAndStartPosition(String chromosome, BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    // withConsequences and no vcfinfo
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> getByChromosomeAndStartPosition(String chromosome, BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    // withVcInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> retrieveByChromosomeAndStartPosition(String chromosome, BigInteger startPosition, String referenceGenome)
+
+    // only based on refGenome
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> findByChromosome(String chromosome, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.genotype", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> searchByChromosome(String chromosome, String annotationSoftware, String referenceGenome)
+
+    //withConsequences and vcfInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> queryByChromosome(String chromosome, String annotationSoftware, String referenceGenome)
+
+    // withConsequences and no vcfinfo
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> getByChromosome(String chromosome, String annotationSoftware, String referenceGenome)
+
+    // withVcInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> retrieveByChromosome(String chromosome, String referenceGenome)
+
+    // only based on refGenome
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> findByStartPosition(BigInteger startPosition, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.genotype", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> searchByStartPosition(BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    //withConsequences and vcfInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> queryByStartPosition(BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    // withConsequences and no vcfinfo
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    @Join(value = "consequences", type = Join.Type.INNER, alias = "consequence")
+    @Join(value = "consequences.annotations", type = Join.Type.INNER, alias = "annotationsoftware")
+    @Where("annotationsoftware.name = :annotationSoftware")
+    List<Variant> getByStartPosition(BigInteger startPosition, String annotationSoftware, String referenceGenome)
+
+    // withVcInfo
+    @Join(value = "sampleVariants", type = Join.Type.LEFT_FETCH)
+    @Join(value = "sampleVariants.vcfinfo", type = Join.Type.LEFT_FETCH)
+    @Join(value = "referenceGenomes", type = Join.Type.INNER, alias = "referencegenome")
+    @Where("referencegenome.build = :referenceGenome")
+    List<Variant> retrieveByStartPosition(BigInteger startPosition, String referenceGenome)
+
+    // only based on refGenome
+    @Query("SELECT variant.*, sample.identifier FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE referencegenome.build = :referenceGenome AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleId(String sampleIdentifier, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.*, genotype.*, sample.identifier FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN genotype ON genotype.id=sample_variant.genotype_id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE referencegenome.build = :referenceGenome AND sample.identifier = :sampleIdentifier AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingSampleIdWithConsAndGeno(String sampleIdentifier, String referenceGenome, String annotationSoftware)
+
+    // withConsequences and vcfinfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.*, sample.identifier FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE referencegenome.build = :referenceGenome AND sample.identifier = :sampleIdentifier AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingSampleIdWithConsAndInfo(String sampleIdentifier, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.*, sample.identifier FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN sample ON sample_variant.sample_id = sample.id WHERE referencegenome.build = :referenceGenome AND sample.identifier = :sampleIdentifier AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingSampleIdWithCons(String sampleIdentifier, String referenceGenome, String annotationSoftware)
+
+    // withVcInfo
+    @Query("SELECT variant.*, vcfinfo.* , sample.identifier FROM variant INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample ON sample_variant.sample_id = sample.id  WHERE referencegenome.build = :referenceGenome AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdWithInfo(String sampleIdentifier, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Query("SELECT variant.*, consequence.*, genotype.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN genotype ON genotype.id=sample_variant.genotype_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND consequence.genesymbol = :geneName AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneNameWithConsAndGeno(String geneName, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND consequence.genesymbol = :geneName AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneNameWithConsAndInfo(String geneName, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id  INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id WHERE referencegenome.build = :referenceGenome AND consequence.genesymbol = :geneName AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneNameWithCons(String geneName, String referenceGenome, String annotationSoftware)
+
+    // withVcInfo
+    @Query("SELECT variant.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND consequence.genesymbol = :geneName")
+    Set<Variant> findUsingGeneNameWithInfo(String geneName, String referenceGenome)
+
+    // only based on refGenome
+    @Query("SELECT variant.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND consequence.genesymbol = :geneName")
+    Set<Variant> findUsingGeneName(String geneName, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Query("SELECT variant.*, consequence.*, genotype.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN genotype ON genotype.id=sample_variant.genotype_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneIdWithConsAndGeno(String geneId, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneIdWithConsAndInfo(String geneId, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id  INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware")
+    Set<Variant> findUsingGeneIdWithCons(String geneId, String referenceGenome, String annotationSoftware)
+
+    // withVcInfo
+    @Query("SELECT variant.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId")
+    Set<Variant> findUsingGeneIdWithInfo(String geneId, String referenceGenome)
+
+    // only based on refGenome
+    @Query("SELECT variant.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId")
+    Set<Variant> findUsingGeneId(String geneId, String referenceGenome)
+
+    // withConsequences and genotypes and vcfinfo
+    @Query("SELECT variant.*, consequence.*, genotype.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id INNER JOIN genotype ON genotype.id=sample_variant.genotype_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdAndGeneIdWithConsAndGeno(String sampleIdentifier, String geneId, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdAndGeneIdWithConsAndInfo(String sampleIdentifier, String geneId, String referenceGenome, String annotationSoftware)
+
+    //withConsequences and no vcfInfo
+    @Query("SELECT variant.*, consequence.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN annotationsoftware_consequence ON annotationsoftware_consequence.consequence_id= consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id  INNER JOIN annotationsoftware ON annotationsoftware.id = annotationsoftware_consequence.annotationsoftware_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND annotationsoftware.name = :annotationSoftware AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdAndGeneIdWithCons(String sampleIdentifier, String geneId, String referenceGenome, String annotationSoftware)
+
+    // withVcInfo
+    @Query("SELECT variant.*, vcfinfo.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id  INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id INNER JOIN vcfinfo ON vcfinfo.id=sample_variant.vcfinfo_id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdAndGeneIdWithInfo(String sampleIdentifier, String geneId, String referenceGenome)
+
+    // only based on refGenome
+    @Query("SELECT variant.* FROM variant INNER JOIN referencegenome_variant ON variant.id=referencegenome_variant.variant_id INNER JOIN referencegenome ON referencegenome.id=referencegenome_variant.referencegenome_id INNER JOIN sample_variant ON variant.id = sample_variant.variant_id INNER JOIN sample ON sample_variant.sample_id = sample.id INNER JOIN variant_consequence ON variant.id = variant_consequence.variant_id INNER JOIN consequence on variant_consequence.consequence_id = consequence.id INNER JOIN gene_consequence on gene_consequence.consequence_id = consequence.id INNER JOIN gene on gene.id=gene_consequence.gene_id WHERE referencegenome.build = :referenceGenome AND gene.geneid = :geneId AND sample.identifier = :sampleIdentifier")
+    Set<Variant> findUsingSampleIdAndGeneId(String sampleIdentifier, String geneId, String referenceGenome)
+}
diff --git a/src/main/groovy/life/qbic/variantstore/repositories/VcfinfoRepository.groovy b/src/main/groovy/life/qbic/variantstore/repositories/VcfinfoRepository.groovy
new file mode 100644
index 0000000..530bcb3
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/repositories/VcfinfoRepository.groovy
@@ -0,0 +1,28 @@
+package life.qbic.variantstore.repositories
+
+import io.micronaut.core.annotation.Nullable
+import io.micronaut.data.annotation.Repository
+import io.micronaut.data.jdbc.annotation.JdbcRepository
+import io.micronaut.data.model.query.builder.sql.Dialect
+import io.micronaut.data.repository.CrudRepository
+import life.qbic.variantstore.model.VcfInfo
+
+/**
+ * The VcfInfo repository
+ *
+ * @since: 1.1.0
+ */
+@Repository("variantstore-postgres")
+@JdbcRepository(dialect = Dialect.POSTGRES)
+interface VcfinfoRepository extends CrudRepository<VcfInfo, Long>{
+
+    @Override
+    Optional<VcfInfo> findById(Long id)
+
+    Optional<VcfInfo> find(@Nullable String ancestralAllele, List<Integer> alleleCount, List<Float> alleleFrequency,
+                           Integer numberAlleles, Integer baseQuality, @Nullable String cigar, boolean dbSnp,
+                           boolean hapmapTwo, boolean hapmapThree, boolean thousandGenomes, Integer combinedDepth,
+                           Integer endPos, Float rms, Integer mqZero, Integer strandBias, Integer numberSamples,
+                           boolean somatic, boolean validated)
+
+}
diff --git a/src/main/groovy/life/qbic/variantstore/service/VariantstoreInformationCenter.groovy b/src/main/groovy/life/qbic/variantstore/service/VariantstoreInformationCenter.groovy
index 3190414..7a41947 100644
--- a/src/main/groovy/life/qbic/variantstore/service/VariantstoreInformationCenter.groovy
+++ b/src/main/groovy/life/qbic/variantstore/service/VariantstoreInformationCenter.groovy
@@ -1,18 +1,19 @@
 package life.qbic.variantstore.service
 
-import groovy.util.logging.Log4j2
+import io.micronaut.context.annotation.Value
 import life.qbic.variantstore.model.*
-import life.qbic.variantstore.parser.EnsemblParser
 import life.qbic.variantstore.parser.MetadataContext
 import life.qbic.variantstore.parser.MetadataReader
 import life.qbic.variantstore.parser.SimpleVCFReader
+import life.qbic.variantstore.repositories.TransactionStatusRepository
 import life.qbic.variantstore.util.AnnotationHandler
 import life.qbic.variantstore.util.ListingArguments
 import life.qbic.variantstore.util.VariantExporter
-import javax.inject.Inject
-import javax.inject.Singleton
-import javax.transaction.Transactional
-import javax.validation.constraints.NotNull
+import jakarta.inject.*
+import io.micronaut.core.annotation.NonNull
+import life.qbic.variantstore.util.VcfConstants
+import org.slf4j.Logger
+import org.slf4j.LoggerFactory
 
 /**
  * A VariantstoreService implementation.
@@ -21,32 +22,26 @@ import javax.validation.constraints.NotNull
  *
  * @since: 1.0.0
  */
-@Log4j2
 @Singleton
 class VariantstoreInformationCenter implements VariantstoreService{
 
+    private static final Logger LOGGER = LoggerFactory.getLogger(VariantstoreInformationCenter.class);
+
     /**
-     * The maximum allele length that is consideres for further processing.
+     * The maximum allele length that is considered for further processing.
      * Variants with a larger allele length are filtered.
      */
-    static final Integer MAX_ALLELE_LENGTH = 255
+    static final int MAX_ALLELE_LENGTH = 255
     /**
      * The maximum number of variants that are processed and forwarded to the storage interface per batch.
      * This has effects on run time and memory consumption.
      */
-    static final Integer MAX_NUMBER_OF_VARIANTS_PER_BATCH = 250000
-    /**
-     * The string used in a VCF file to represent a tumor genotype
-     */
-    static final String TUMOR_ENTITY = "TUMOR"
-    /**
-     * The string used in VCF to represent a benign genotype
-     */
-    static final String NORMAL_ENTITY = "NORMAL"
+    @Value('${max-variants-per-batch}')
+    static final int MAX_NUMBER_OF_VARIANTS_PER_BATCH
     /**
      * The Variantstore storage
      */
-    private final VariantstoreStorage storage
+    private VariantstoreStorage storage
 
     @Inject
     VariantstoreInformationCenter(VariantstoreStorage storage) {
@@ -57,7 +52,14 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
+    Optional<Project> getProjectForProjectId(String projectId) {
+        return storage.findProjectById(projectId)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
     List<Case> getCaseForCaseId(String caseId) {
         return storage.findCaseById(caseId)
     }
@@ -66,8 +68,7 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<SimpleVariantContext> getVariantForVariantId(String variantId) {
+    Set<SimpleVariantContext> getVariantForVariantId(String variantId) {
         return storage.findVariantById(variantId)
     }
 
@@ -75,8 +76,7 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<Gene> getGeneForGeneId(String geneId, @NotNull ListingArguments args) {
+    Set<Gene> getGeneForGeneId(String geneId, @NonNull ListingArguments args) {
         return storage.findGeneById(geneId, args)
     }
 
@@ -84,11 +84,10 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
     BeaconAlleleResponse getBeaconAlleleResponse(String chromosome, BigInteger start,
                                         String reference, String observed, String assemblyId) {
 
-        List<Variant> variants = storage.findVariantsForBeaconResponse(chromosome, start, reference, observed, assemblyId)
+        Set<Variant> variants = storage.findVariantsForBeaconResponse(chromosome, start, reference, observed, assemblyId)
         BeaconAlleleRequest request = new BeaconAlleleRequest(chromosome, start, reference, observed, assemblyId)
         BeaconAlleleResponse response = new BeaconAlleleResponse(request, !variants.empty)
         return response
@@ -98,7 +97,6 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
     List<Sample> getSampleForSampleId(String sampleId) {
         return storage.findSampleById(sampleId)
     }
@@ -107,8 +105,15 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<Case> getCasesForSpecifiedProperties(@NotNull ListingArguments args) {
+    List<Project> getProjectsForSpecifiedProperties(@NonNull ListingArguments args) {
+        return storage.findProjects(args)
+    }
+
+    /**
+     * {@inheritDoc}
+     */
+    @Override
+    List<Case> getCasesForSpecifiedProperties(@NonNull ListingArguments args) {
         return storage.findCases(args)
     }
 
@@ -116,8 +121,7 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<Sample> getSamplesForSpecifiedProperties(@NotNull ListingArguments args) {
+    List<Sample> getSamplesForSpecifiedProperties(@NonNull ListingArguments args) {
         return storage.findSamples(args)
     }
 
@@ -125,8 +129,7 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<Gene> getGenesForSpecifiedProperties(@NotNull ListingArguments args) {
+    Set<Gene> getGenesForSpecifiedProperties(@NonNull ListingArguments args) {
         return storage.findGenes(args)
     }
 
@@ -134,17 +137,14 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    String getVcfContentForVariants(List<SimpleVariantContext> variants, Boolean withConsequences, Boolean
-            withGenotypes,
-                                    String referenceGenome, String annotationSoftware, String
-                                            annotationSoftwareVersion, String version) {
+    String getVcfContentForVariants(Set<SimpleVariantContext> variants, Boolean withConsequences, Boolean withGenotypes,
+                                    String referenceGenome, String annotationSoftware, String annotationSoftwareVersion,
+                                    String version) {
         // order variants by position in order to get valid VCF file
         return VariantExporter.exportVariantsToVCF(variants.sort { a, b ->
-            (a.chromosome?.isInteger() ? a.chromosome
-                    .toInteger() : a.chromosome) <=> (b.chromosome?.isInteger() ? b.chromosome.toInteger() : b
-                    .chromosome) ?: a.startPosition <=> b.startPosition
-        } as List<SimpleVariantContext>, withConsequences, withGenotypes, referenceGenome, annotationSoftware,
+            (a.chromosome?.isInteger() ? a.chromosome.toInteger() : a.chromosome) <=> (b.chromosome?.isInteger() ?
+                    b.chromosome.toInteger() : b.chromosome) ?: a.startPosition <=> b.startPosition} as
+                List<SimpleVariantContext>, withConsequences, withGenotypes, referenceGenome, annotationSoftware,
                 annotationSoftwareVersion, version)
     }
 
@@ -152,20 +152,20 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    String getFhirContentForVariants(List<SimpleVariantContext> variants, Boolean withConsequences, String referenceGenome) {
-        return VariantExporter.exportVariantsToFHIR(variants.sort { a, b -> (a.chromosome?.isInteger() ? a.chromosome
-                .toInteger() : a.chromosome) <=> (b.chromosome?.isInteger() ? b.chromosome.toInteger() : b
-                .chromosome) ?: a.startPosition <=> b.startPosition }, withConsequences, referenceGenome) }
+    String getFhirContentForVariants(Set<SimpleVariantContext> variants, Boolean withConsequences, String referenceGenome) {
+        return VariantExporter.exportVariantsToFHIR(variants.sort { a, b ->
+            (a.chromosome?.isInteger() ? a.chromosome.toInteger() : a.chromosome) <=> (b.chromosome?.isInteger() ?
+                    b.chromosome.toInteger() : b.chromosome) ?: a.startPosition <=> b.startPosition }, withConsequences, referenceGenome) }
 
     /**
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    List<SimpleVariantContext> getVariantsForSpecifiedProperties(ListingArguments args, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes) {
-        def variants = storage.findVariants(args, referenceGenome, withConsequences, annotationSoftware, withVcfInfo, withGenotypes)
+    Set<SimpleVariantContext> getVariantsForSpecifiedProperties(ListingArguments args, String referenceGenome,
+                                                                 Boolean withConsequences, String annotationSoftware,
+                                                                 Boolean withVcfInfo, Boolean withGenotypes) {
+        def variants = storage.findVariants(args, referenceGenome, withConsequences, annotationSoftware,
+                withVcfInfo, withGenotypes)
         return variants
     }
 
@@ -173,34 +173,38 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
     void storeVariantsInStore(String metadata, InputStream inputStream, TransactionStatusRepository repository, TransactionStatus transactionStatus) {
         MetadataReader meta = new MetadataReader(metadata)
-        Annotation annotationSoftware =  meta.getMetadataContext().getVariantAnnotation()
+        MetadataContext metadataContext = meta.getMetadataContext()
+
+        Annotation annotationSoftware =  metadataContext.getVariantAnnotation()
         AnnotationHandler.AnnotationTools annotationTool = annotationSoftware.getName().toUpperCase()  as AnnotationHandler.AnnotationTools
         SimpleVCFReader reader = new SimpleVCFReader(inputStream, annotationTool.getTag())
-        SimpleVariantContext variant = null
-        ArrayList<SimpleVariantContext> variantsToInsert = null
-        def sampleGenotypeMapping = [:]
+
+        SimpleVariantContext variant
+        HashMap<String, Sample> sampleGenotypeMapping = new HashMap<String, Sample>()
         def idx = 0
 
-        log.info("Storing provided metadata and variants in the store")
+        ArrayList<SimpleVariantContext> variantsToInsert = null
+
+        LOGGER.info("Storing provided metadata and variants in the store")
         try {
             while (reader.iterator().hasNext()) {
                 variant = reader.iterator().next()
 
                 AnnotationHandler.addAnnotationsToVariant(variant, annotationSoftware)
-                variant.setIsSomatic(meta.getMetadataContext().getIsSomatic())
+                variant.setIdentifier(UUID.randomUUID().toString())
+                variant.setSomatic(metadataContext.getIsSomatic())
 
                 if (idx == 0) {
-                    sampleGenotypeMapping = determineGenotypeMapping(variant, meta.getMetadataContext())
+                    sampleGenotypeMapping = determineGenotypeMapping(variant, metadataContext)
                 }
 
                 if ((variant.referenceAllele.length() > MAX_ALLELE_LENGTH) || (variant.observedAllele.length() > MAX_ALLELE_LENGTH)) {
                     def warning = new StringBuilder("Skipping variant").append(variant.startPosition).append(":")
                             .append(variant.referenceAllele).append(">").append(" because the reference or observed "
                             + "allele is exceeding the maximum length\"")
-                    log.warn(warning)
+                    LOGGER.warn(warning)
                 }  else {
                     if (variantsToInsert == null) variantsToInsert = new ArrayList<>(250000)
                     variantsToInsert.add(variant)
@@ -208,15 +212,18 @@ class VariantstoreInformationCenter implements VariantstoreService{
                 }
 
                 if (idx == MAX_NUMBER_OF_VARIANTS_PER_BATCH) {
-                    storage.storeVariantsInStoreWithMetadata(meta.getMetadataContext(), sampleGenotypeMapping,variantsToInsert)
+                    storage.storeVariantsInStoreWithMetadata(metadataContext, sampleGenotypeMapping,variantsToInsert)
                     variantsToInsert.clear()
                     idx = 0
                 }
             }
-            storage.storeVariantsInStoreWithMetadata(meta.getMetadataContext(), sampleGenotypeMapping, variantsToInsert)
+            storage.storeVariantsInStoreWithMetadata(metadataContext, sampleGenotypeMapping, variantsToInsert)
             variantsToInsert.clear()
             repository.updateStatus(transactionStatus.getId(), Status.finished.toString())
-            log.info("...done.")
+            LOGGER.info("...done.")
+        }
+        catch (Exception e) {
+            e.printStackTrace()
         }
         finally {
             reader.iterator().close()
@@ -229,11 +236,10 @@ class VariantstoreInformationCenter implements VariantstoreService{
      * {@inheritDoc}
      */
     @Override
-    @Transactional
-    void storeGeneInformationInStore(EnsemblParser ensembl) {
-        log.info("Storing provided gene information in store")
-        storage.storeGenesWithMetadata(ensembl.version, ensembl.date, ensembl.referenceGenome, ensembl.genes)
-        log.info("...done.")
+    void storeGeneInformationInStore(Ensembl ensembl) {
+        LOGGER.info("Storing provided gene information in store")
+        storage.storeGenesWithMetadata(ensembl)
+        LOGGER.info("...done.")
     }
 
     /**
@@ -252,7 +258,7 @@ class VariantstoreInformationCenter implements VariantstoreService{
         }
 
         if (genotypesIdentifiers.isEmpty()) {
-            log.info("No sample/genotype information provided in VCF, using information given in metadata file.")
+            LOGGER.info("No sample/genotype information provided in VCF, using information given in metadata file.")
             meta.samples.each { sample ->
                 sampleGenotypeMapping.put(sample.identifier, sample)
             }
@@ -268,13 +274,13 @@ class VariantstoreInformationCenter implements VariantstoreService{
                     if (searchIndex > -1) {
                         sampleGenotypeMapping[genotypesIdentifiers[searchIndex]] = sample
                     } else {
-                        log.info("Genotype identifier does not match any sample identifiers. Trying to map identifiers...")
-                        if (sample.cancerEntity && genotypesIdentifiers.findIndexOf { TUMOR_ENTITY } > -1) {
-                            sampleGenotypeMapping[NORMAL_ENTITY] = sample
-                        } else if (!sample.cancerEntity && genotypesIdentifiers.findIndexOf { NORMAL_ENTITY } > -1) {
-                            sampleGenotypeMapping[TUMOR_ENTITY] = sample
+                        LOGGER.info("Genotype identifier does not match any sample identifiers. Trying to map identifiers...")
+                        if (sample.cancerEntity && genotypesIdentifiers.findIndexOf { VcfConstants.TUMOR } > -1) {
+                            sampleGenotypeMapping[VcfConstants.NORMAL] = sample
+                        } else if (!sample.cancerEntity && genotypesIdentifiers.findIndexOf { VcfConstants.NORMAL } > -1) {
+                            sampleGenotypeMapping[VcfConstants.TUMOR] = sample
                         } else {
-                            log.error("Could not map genotype information to provided sample information.")
+                            LOGGER.error("Could not map genotype information to provided sample information.")
                         }
                     }
                 }
@@ -284,5 +290,3 @@ class VariantstoreInformationCenter implements VariantstoreService{
         return sampleGenotypeMapping
     }
 }
-
-
diff --git a/src/main/groovy/life/qbic/variantstore/service/VariantstoreService.groovy b/src/main/groovy/life/qbic/variantstore/service/VariantstoreService.groovy
index 359a912..d2f279a 100644
--- a/src/main/groovy/life/qbic/variantstore/service/VariantstoreService.groovy
+++ b/src/main/groovy/life/qbic/variantstore/service/VariantstoreService.groovy
@@ -1,9 +1,9 @@
 package life.qbic.variantstore.service
 
 import life.qbic.variantstore.model.*
-import life.qbic.variantstore.parser.EnsemblParser
+import life.qbic.variantstore.repositories.TransactionStatusRepository
 import life.qbic.variantstore.util.ListingArguments
-import javax.inject.Singleton
+import jakarta.inject.Singleton
 
 /**
  * The Variantstore service interface.
@@ -13,61 +13,84 @@ import javax.inject.Singleton
 @Singleton
 interface VariantstoreService {
 
+    /**
+     * Retrieve project for specified project identifier.
+     * @param identifier the project identifier
+     * @return list of found project
+     */
+    Optional<Project> getProjectForProjectId(String identifier)
+
     /**
      * Retrieves cases for specified case identifier.
      * @param identifier the case identifier
      * @return list of found cases
      */
     List<Case> getCaseForCaseId(String identifier)
+
     /**
      * Retrieves variants for specified variant identifier.
      * @param identifier the variant identifier
-     * @return list of found variants
+     * @return set of found variants
      */
-    List<SimpleVariantContext> getVariantForVariantId(String identifier)
+    Set<SimpleVariantContext> getVariantForVariantId(String identifier)
+
     /**
      * Retrieves genes for specified gene identifier and optionally arguments to e.g. specify the Ensembl version.
      * @param identifier the gene identifier
      * @param args optional arguments to specify Ensembl version
-     * @return list of found genes
+     * @return set of found genes
      */
-    List<Gene> getGeneForGeneId(String identifier, ListingArguments args)
+    Set<Gene> getGeneForGeneId(String identifier, ListingArguments args)
+
     /**
      * Retrieves samples for specified variant identifier.
      * @param identifier the variant identifier
      * @return list of found variants
      */
     List<Sample> getSampleForSampleId(String identifier)
+
     /**
-     * Retrieves cases for specified filtering options.
+     * Retrieves projects for specified filtering options.
      * @param args the provided filtering options
-     * @return list of cases genes
+     * @return list of found projects
      */
+    List<Project> getProjectsForSpecifiedProperties(ListingArguments args)
+
+    /**
+    * Retrieves cases for specified filtering options.
+    * @param args the provided filtering options
+    * @return list of found cases
+    */
     List<Case> getCasesForSpecifiedProperties(ListingArguments args)
+
     /**
      * Retrieves samples for specified filtering options.
      * @param args the provided filtering options
      * @return list of found samples
      */
     List<Sample> getSamplesForSpecifiedProperties(ListingArguments args)
+
     /**
      * Retrieves variants for specified (filtering) options.
      * @param args the filtering options
      * @param referenceGenome the associated reference genome
-     * @param withConsequences true if connected consequenes should be returned
+     * @param withConsequences true if connected consequences should be returned
      * @param annotationSoftware the associated annotation software
      * @param withVcfInfo true if connected VCF INFO should be returned
      * @param withGenotypes true if connected genotype information should be returned
-     * @return list of found variants
+     * @return set of found variants
      */
-    List<SimpleVariantContext> getVariantsForSpecifiedProperties(ListingArguments args, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes)
+    Set<SimpleVariantContext> getVariantsForSpecifiedProperties(ListingArguments args, String referenceGenome,
+                                                                 Boolean withConsequences, String annotationSoftware,
+                                                                 Boolean withVcfInfo, Boolean withGenotypes)
+
     /**
      * Retrieves genes for specified filtering options.
      * @param args the provided filtering options
-     * @return list of found genes
+     * @return set of found genes
      */
-    List<Gene> getGenesForSpecifiedProperties(ListingArguments args)
+    Set<Gene> getGenesForSpecifiedProperties(ListingArguments args)
+
     /**
      * Generates the Beacon allele response for given information.
      * @param chromosome the chromosome
@@ -79,6 +102,7 @@ interface VariantstoreService {
      */
     BeaconAlleleResponse getBeaconAlleleResponse(String chromosome, BigInteger start,
                                                  String reference, String observed, String assemblyId)
+
     /**
      * Generates content in Variant Call Format (VCF) for given set of variants.
      * @param variants the provided variants
@@ -90,8 +114,10 @@ interface VariantstoreService {
      * @param version the VCF version
      * @return the variant content in Variant Call Format
      */
-    String getVcfContentForVariants(List<SimpleVariantContext> variants, Boolean withConsequences, Boolean withGenotypes, String
-            referenceGenome, String annotationSoftware, String annotationSoftwareVersion, String version)
+    String getVcfContentForVariants(Set<SimpleVariantContext> variants, Boolean withConsequences, Boolean withGenotypes,
+                                    String referenceGenome, String annotationSoftware, String annotationSoftwareVersion,
+                                    String version)
+
     /**
      * Generates content in FHIR format for given set of variants.
      * @param variants the provided variants
@@ -101,16 +127,18 @@ interface VariantstoreService {
      * @param annotationSoftware the annotation software
      * @return the variant content in FHIR format
      */
-    String getFhirContentForVariants(List<SimpleVariantContext> variants, Boolean withConsequences, String referenceGenome)
+    String getFhirContentForVariants(Set<SimpleVariantContext> variants, Boolean withConsequences, String referenceGenome)
+
     /**
      * Stores variants given in VCF file and accompanied metadata in the store.
      * @param metadata JSON string holding metadata
      * @param inputStream input stream of variant content
      */
     void storeVariantsInStore(String metadata, InputStream inputStream, TransactionStatusRepository repository, TransactionStatus transactionStatus)
+
     /**
      * Stores gene information provided in a GFF3 file (Ensembl) in the store.
-     * @param ensemblParser parser to extract information from GFF3 file
+     * @param ensemblContext the ensembl context holding information parsed from Ensembl
      */
-    void storeGeneInformationInStore(EnsemblParser ensemblParser)
+    void storeGeneInformationInStore(Ensembl ensemblContext)
 }
diff --git a/src/main/groovy/life/qbic/variantstore/service/VariantstoreStorage.groovy b/src/main/groovy/life/qbic/variantstore/service/VariantstoreStorage.groovy
index 183396e..324fd02 100644
--- a/src/main/groovy/life/qbic/variantstore/service/VariantstoreStorage.groovy
+++ b/src/main/groovy/life/qbic/variantstore/service/VariantstoreStorage.groovy
@@ -3,17 +3,20 @@ package life.qbic.variantstore.service
 import life.qbic.variantstore.database.VariantstoreStorageException
 import life.qbic.variantstore.model.Case
 import life.qbic.variantstore.model.Consequence
+import life.qbic.variantstore.model.Ensembl
 import life.qbic.variantstore.model.Gene
+import life.qbic.variantstore.model.Project
 import life.qbic.variantstore.model.ReferenceGenome
 import life.qbic.variantstore.model.Sample
 import life.qbic.variantstore.model.SimpleVariantContext
 import life.qbic.variantstore.model.Variant
 import life.qbic.variantstore.model.VariantCaller
 import life.qbic.variantstore.model.Annotation
+
 import life.qbic.variantstore.parser.MetadataContext
 import life.qbic.variantstore.util.ListingArguments
-import javax.inject.Singleton
-import javax.validation.constraints.NotNull
+import jakarta.inject.Singleton
+import io.micronaut.core.annotation.NonNull
 
 /**
  * The Variantstore storage interface.
@@ -30,11 +33,18 @@ interface VariantstoreStorage {
      * @param reference the reference allele
      * @param observed the observed allele
      * @param assemblyId the identifier (build) of the reference genome
-     * @return list of found variants
+     * @return set of found variants
      */
-    List<Variant> findVariantsForBeaconResponse(String chromosome, BigInteger start,
+    Set<Variant> findVariantsForBeaconResponse(String chromosome, BigInteger start,
                                           String reference, String observed, String assemblyId)
 
+    /**
+     * Find project in store by identifier.
+     * @param identifier the project identifier
+     * @return optional project
+     */
+    Optional<Project> findProjectById(String identifier)
+
     /**
      * Find case in store by identifier.
      * @param identifier the case identifier
@@ -52,65 +62,72 @@ interface VariantstoreStorage {
     /**
      * Find variant in store by identifier.
      * @param identifier the variant identifier
-     * @return list of found variants
+     * @return set of found variants
      */
-    List<Variant> findVariantById(String identifier)
+    Set<Variant> findVariantById(String identifier)
 
     /**
      * Find gene in store by identifier.
      * @param identifier the gene identifier
      * @param args further optional arguments to specify Ensembl version e.g.
-     * @return list of found genes
+     * @return set of found genes
+     */
+    Set<Gene> findGeneById(String identifier, @NonNull ListingArguments args)
+
+    /**
+     * Find projects for specified filtering options.
+     * @param args the provided filtering options
+     * @return list of found projects
      */
-    List<Gene> findGeneById(String identifier, @NotNull ListingArguments args)
+    List<Project> findProjects(@NonNull ListingArguments args)
 
     /**
      * Find cases for specified filtering options.
      * @param args the provided filtering options
      * @return list of found cases
      */
-    List<Case> findCases(@NotNull ListingArguments args)
+    List<Case> findCases(@NonNull ListingArguments args)
 
     /**
      * Find samples for specified filtering options.
      * @param args the provided filtering options
      * @return list of found samples
      */
-    List<Sample> findSamples(@NotNull ListingArguments args)
+    List<Sample> findSamples(@NonNull ListingArguments args)
 
     /**
      * Find variants for specified (filtering) options.
      * @param args the filtering options
      * @param referenceGenome the associated reference genome
-     * @param withConsequences true if connected consequenes should be returned
+     * @param withConsequences true if connected consequences should be returned
      * @param annotationSoftware the associated annotation software
      * @param withVcfInfo true if connected VCF INFO should be returned
      * @param withGenotypes true if connected genotype information should be returned
-     * @return list of found variants
+     * @return set of found variants
      */
-    List<Variant> findVariants(@NotNull ListingArguments args, String referenceGenome, Boolean
-            withConsequences, String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes)
+    Set<Variant> findVariants(@NonNull ListingArguments args, String referenceGenome, Boolean withConsequences,
+                               String annotationSoftware, Boolean withVcfInfo, Boolean withGenotypes)
 
     /**
      * Find annotation software used to annotate the given consequence.
      * @param consequence the provided consequence
-     * @return the found annotation software
+     * @return set of found annotation software
      */
-    Annotation findAnnotationSoftwareByConsequence(Consequence consequence)
+    Set<Annotation> findAnnotationSoftwareByConsequence(Consequence consequence)
 
     /**
-     * Find reference genome of given variant.
+     * Find reference genomes of given variant.
      * @param variant the provided variant
-     * @return the found reference genome
+     * @return set of found reference genomes
      */
-    ReferenceGenome findReferenceGenomeByVariant(Variant variant)
+    Set<ReferenceGenome> findReferenceGenomeByVariant(Variant variant)
 
     /**
      * Find genes for specified filtering options.
      * @param args the provided filtering options
-     * @return list of found genes
+     * @return set of found genes
      */
-    List<Gene> findGenes(@NotNull ListingArguments args)
+    Set<Gene> findGenes(@NonNull ListingArguments args)
 
     /**
      * Store case in the store.
@@ -148,14 +165,11 @@ interface VariantstoreStorage {
      * @param sampleIdentifiers the provided sample identifiers (mapped to genotypes)
      * @param variantContext the provided variants
      */
-    void storeVariantsInStoreWithMetadata(MetadataContext metadata, Map sampleIdentifiers, ArrayList<SimpleVariantContext> variantContext) throws VariantstoreStorageException
+    void storeVariantsInStoreWithMetadata(MetadataContext metadata, Map<String, Sample> sampleIdentifiers, ArrayList<SimpleVariantContext> variantContext) throws VariantstoreStorageException
 
     /**
      * Store genes with provided metadata in the store.
-     * @param version the version of the provided information
-     * @param date the date of the provided information
-     * @param referenceGenome the reference genome
-     * @param genes the provided genes
+     * @param ensemblContext the ensemblContext
      */
-    void storeGenesWithMetadata(Integer version, String date, ReferenceGenome referenceGenome, List<Gene> genes) throws VariantstoreStorageException
+    void storeGenesWithMetadata(Ensembl ensemblContext) throws VariantstoreStorageException
 }
diff --git a/src/main/groovy/life/qbic/variantstore/util/AnnotationHandler.groovy b/src/main/groovy/life/qbic/variantstore/util/AnnotationHandler.groovy
index 6b1c95e..8d8456f 100644
--- a/src/main/groovy/life/qbic/variantstore/util/AnnotationHandler.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/AnnotationHandler.groovy
@@ -1,8 +1,8 @@
 package life.qbic.variantstore.util
 
-import groovy.util.logging.Log4j2
 import life.qbic.variantstore.model.Annotation
 import life.qbic.variantstore.model.Consequence
+import life.qbic.variantstore.model.Gene
 import life.qbic.variantstore.model.SimpleVariantContext
 
 /**
@@ -13,14 +13,14 @@ import life.qbic.variantstore.model.SimpleVariantContext
  *
  * @since: 1.0.0
  */
-@Log4j2
 class AnnotationHandler {
 
     /**
-     * Maps holding mapping of properties to position in string.
+     * Maps holding mapping of properties to position in string for VEP and SnpEff.
      */
     public static Map<String, Map<String, Object>> vep = [:]
     public static Map<String, Map<String, Object>> snpEff = [:]
+
     /**
      * Map to store output format for different SnpEff and VEP versions
      */
@@ -43,6 +43,7 @@ class AnnotationHandler {
         }
     }
 
+    // Properties and positions for different VEP and SnpEff versions
     static {
         // VEP version 95
         //@TODO additional fields needed?
@@ -89,6 +90,7 @@ class AnnotationHandler {
         snpeff1.put("warnings", 15)
         snpEff.put("4.3t", snpeff1)
         snpEff.put("bioconda::4.3.1t", snpeff1)
+
         def outputStringSNPeff = "%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s|%s"
         snpEffOutput.put("4.3t", outputStringSNPeff)
         snpEffOutput.put("bioconda::4.3.1t", outputStringSNPeff)
@@ -124,16 +126,19 @@ class AnnotationHandler {
         def parsedAnnotation = annotation.split('\\|', -1)
         def version = annotationSoftware.getVersion()
         def softwareName = annotationSoftware.getName().toUpperCase() as AnnotationTools
-        def cons = null
+        def cons
+        Set<Gene> genes = []
 
         switch (softwareName) {
+
+            // VEP
             case AnnotationTools.VEP:
                 def allele = parsedAnnotation[vep[version].get("allele") as Integer]
                 def codingChange = parsedAnnotation[vep[version].get("cdsCoding") as Integer]
                 def transcriptId = parsedAnnotation[vep[version].get("transcriptId") as Integer]
                 def (transcriptVersionParsed, aaChangeParsed) = parsedAnnotation[vep[version].get("proteinCoding") as Integer]
                         .tokenize(':')
-                def transcriptVersion = transcriptVersionParsed ? transcriptVersionParsed.tokenize(".").last() : -1
+                def transcriptVersion = transcriptVersionParsed ? transcriptVersionParsed.tokenize(".").last() as Integer : -1
                 def aaChange = aaChangeParsed ?: ''
                 def type = parsedAnnotation[vep[version].get("consequence") as Integer]
                 def bioType = parsedAnnotation[vep[version].get("bioType") as Integer]
@@ -148,6 +153,9 @@ class AnnotationHandler {
                 def impact = parsedAnnotation[vep[version].get("impact") as Integer]
                 def geneId = parsedAnnotation[vep[version].get("gene") as Integer]
                 def geneSymbol = parsedAnnotation[vep[version].get("symbol") as Integer]
+                def gene = new Gene()
+                gene.setGeneId(geneId)
+                gene.setSymbol(geneSymbol)
                 def (cdna, cdnaLengthParsed) = parsedAnnotation[vep[version].get("cdnaPos") as Integer].tokenize('/')
                 def (cds, cdsLengthParsed) = parsedAnnotation[vep[version].get("cdsPos") as Integer].tokenize('/')
                 def cdsPosition = cds ?: ''
@@ -160,20 +168,23 @@ class AnnotationHandler {
                 def strandParsed = parsedAnnotation[vep[version].get("strand") as Integer]
                 def strand = strandParsed ? strandParsed.toInteger() : 0
                 def warnings = ''
+                gene.setGeneId(geneId)
+                gene.setSymbol(geneSymbol)
+                genes.add(gene)
 
                 cons =  new Consequence(allele, codingChange, transcriptId, transcriptVersion, type,
                         bioType, canonical, aaChange, cdnaPosition, cdsPosition, proteinPosition, proteinLength,
                         cdnaLength, cdsLength, impact, exon, intron, strand, geneSymbol, geneId, featureType,
                         distance, warnings)
+                cons.setGenes(genes)
                 break
 
+            // SnpEff
             case AnnotationTools.SNPEFF:
                 def geneId = (parsedAnnotation[snpEff[version].get("gene") as Integer].intern() != '') ?
                         parsedAnnotation[snpEff[version].get("gene") as Integer].intern() : ''
+                // skipping annotation due to missing gene identifier
                 if ((geneId == null) || (geneId == "")) {
-                    //@TODO check if OK in every case
-                    //log.info("Skipping annotaton with transcript id ${cons.transcriptId} due to missing gene
-                    // identifier.")
                     return null
                 }
                 def allele = parsedAnnotation[snpEff[version].get("allele") as Integer].intern()
@@ -207,15 +218,20 @@ class AnnotationHandler {
                 def distanceParsed = parsedAnnotation[snpEff[version].get("distance") as Integer].intern()
                 def distance = distanceParsed && !distanceParsed.isEmpty() ? distanceParsed.toInteger() : -1
                 def warnings = parsedAnnotation[snpEff[version].get("warnings") as Integer].intern()
+                def gene = new Gene()
+                // @TODO handle intergenic cases here, i.e. create two genes objects probably
+                gene.setGeneId(geneId)
+                gene.setSymbol(geneSymbol)
+                genes.add(gene)
 
                 cons =  new Consequence(allele, codingChange, transcriptId, transcriptVersion, type,
                         bioType, canonical, aaChange, cdnaPosition, cdsPosition, proteinPosition, proteinLength,
                         cdnaLength, cdsLength, impact, exon, intron, strand, geneSymbol, geneId, featureType,
                         distance, warnings)
+                cons.setGenes(genes)
                 break
-
             default:
-                throw new IllegalArgumentException("Unknown annotation software: $annotationSoftware.name");
+                throw new IllegalArgumentException("Unknown annotation software: $annotationSoftware.name")
         }
 
         return cons
@@ -228,10 +244,11 @@ class AnnotationHandler {
      * @return a snpEff annotation
      */
     static String toSnpEff(Consequence cons, String annotationSoftwareVersion) {
-        return sprintf(snpEffOutput[annotationSoftwareVersion], cons.allele, cons.type, cons.impact, cons.geneSymbol, cons.geneId, cons
-                .featureType, cons.transcriptId, cons.bioType, cons.exon, cons.codingChange, cons.aaChange, "/".join
-                (cons.cdnaPosition.toString(), cons.cdnaLength.toString()), "/".join(cons.cdsPosition.toString(),
-                cons.cdsPosition.toString()), "/".join(cons.proteinPosition.toString(), cons.proteinLength.toString()
+        return sprintf(snpEffOutput[annotationSoftwareVersion], cons.allele, cons.type, cons.impact, cons.geneSymbol,
+                cons.geneId, cons.featureType, cons.transcriptId, cons.bioType, cons.exon, cons.codingChange,
+                cons.aaChange, "/".join (cons.cdnaPosition.toString(), cons.cdnaLength.toString()), "/".join(
+                cons.cdsPosition.toString(), cons.cdsPosition.toString()), "/".join(cons.proteinPosition.toString(),
+                cons.proteinLength.toString()
         ), cons.distance.toString(), cons.warnings)
     }
 
@@ -246,8 +263,8 @@ class AnnotationHandler {
         // |EXON|INTRON|HGVSc|HGVSp|cDNA_position|CDS_position|Protein_position|Amino_acids|Codons|Existing_variation
         // |DISTANCE|STRAND|FLAGS|SYMBOL_SOURCE|HGNC_ID
         return sprintf(vepOutput[annotationSoftwareVersion], cons.allele, cons.type, cons.impact, cons.geneSymbol, cons.geneId, cons
-                .featureType, cons.bioType, cons.exon, cons.intron, cons.codingChange, cons.aaChange, "/".join
-                (cons.cdnaPosition.toString(), cons.cdnaLength.toString()), "/".join(cons.cdsPosition.toString(),
+                .featureType, cons.bioType, cons.exon, cons.intron, cons.codingChange, cons.aaChange,
+                "/".join(cons.cdnaPosition.toString(), cons.cdnaLength.toString()), "/".join(cons.cdsPosition.toString(),
                 cons.cdsPosition.toString()), "/".join(cons.proteinPosition.toString(), cons.proteinLength.toString()
         ), cons.distance.toString(), cons.strand, cons.warnings, "", "")
     }
diff --git a/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypes.groovy b/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypes.groovy
index d55ff3d..6b58bfe 100644
--- a/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypes.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypes.groovy
@@ -120,5 +120,4 @@ enum ConsequenceTypes {
                 return ""
         }
     }
-
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypesLoinc.groovy b/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypesLoinc.groovy
index 1cd7d65..b201896 100644
--- a/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypesLoinc.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/ConsequenceTypesLoinc.groovy
@@ -25,4 +25,4 @@ enum ConsequenceTypesLoinc {
     String getTag() {
         tag
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/util/FloatListStringConverter.groovy b/src/main/groovy/life/qbic/variantstore/util/FloatListStringConverter.groovy
new file mode 100644
index 0000000..3892b98
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/util/FloatListStringConverter.groovy
@@ -0,0 +1,29 @@
+package life.qbic.variantstore.util
+
+import io.micronaut.core.convert.ConversionContext
+import io.micronaut.data.model.runtime.convert.AttributeConverter
+import java.util.stream.Collectors
+import jakarta.inject.Singleton
+
+/**
+ * Float to List<String> converter
+ *
+ * @since: 1.1.0
+ */
+@Singleton
+class FloatListStringConverter implements AttributeConverter<List<Float>, String> {
+
+    @Override
+    String convertToPersistedValue(List<Float> entityValue, ConversionContext context) {
+        def formattedValue = entityValue.toString()
+                .replace("[", "")
+                .replace("]", "")
+                .replace(" ", "")
+        return entityValue ? formattedValue : ""
+    }
+
+    @Override
+    List<Float> convertToEntityValue(String persistedValue, ConversionContext context) {
+        return (persistedValue || !persistedValue.empty) ? Arrays.asList(persistedValue.split(",")).stream().map(Float::parseFloat).collect(Collectors.toList()) : []
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/util/IdValidator.groovy b/src/main/groovy/life/qbic/variantstore/util/IdValidator.groovy
index aa538f6..5f36f6e 100644
--- a/src/main/groovy/life/qbic/variantstore/util/IdValidator.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/IdValidator.groovy
@@ -13,8 +13,10 @@ class IdValidator {
     /**
      * The patterns for validation
      */
-    private static final Pattern VALID_QBIC_SAMPLE_CODE = Pattern.compile('(Q[A-Z0-9]{4}[0-9]{3}[A-Z][A-Z0-9]$)|(Q[A-Z0-9]{4}ENTITY-[0-9]*$)', Pattern.CASE_INSENSITIVE)
-    private static final Pattern VALID_UUID = Pattern.compile('([0-9a-fA-F]{8}-[0-9a-fA-F]{4}-[0-9a-fA-F]{4}-[0-9a-fA-F]{4}-[0-9a-fA-F]{12}$)', Pattern.CASE_INSENSITIVE)
+    private static final Pattern VALID_QBIC_SAMPLE_CODE = Pattern.compile('(Q[A-Z\\d]{4}\\d{3}[A-Z][A-Z\\d]$)|(Q[A-Z\\d]{4}ENTITY-\\d*$)',
+            Pattern.CASE_INSENSITIVE)
+    private static final Pattern VALID_UUID = Pattern.compile('([\\da-fA-F]{8}-[\\da-fA-F]{4}-[\\da-fA-F]{4}-[\\da-fA-F]{4}-[\\da-fA-F]{12}$)',
+            Pattern.CASE_INSENSITIVE)
 
     /**
      * The valid variant content formats
@@ -44,4 +46,4 @@ class IdValidator {
     static isSupportedVariantFormat(String format) {
         return VariantFormats.values()*.name().contains(format.toUpperCase())
     }
-}
\ No newline at end of file
+}
diff --git a/src/main/groovy/life/qbic/variantstore/util/IntegerListStringConverter.groovy b/src/main/groovy/life/qbic/variantstore/util/IntegerListStringConverter.groovy
new file mode 100644
index 0000000..3bc7190
--- /dev/null
+++ b/src/main/groovy/life/qbic/variantstore/util/IntegerListStringConverter.groovy
@@ -0,0 +1,29 @@
+package life.qbic.variantstore.util
+
+import io.micronaut.core.convert.ConversionContext
+import io.micronaut.data.model.runtime.convert.AttributeConverter
+import jakarta.inject.Singleton
+import java.util.stream.Collectors
+
+/**
+ * Float to List<String> converter
+ *
+ * @since: 1.1.0
+ */
+@Singleton
+class IntegerListStringConverter implements AttributeConverter<List<Integer>, String> {
+
+    @Override
+    String convertToPersistedValue(List<Integer> entityValue, ConversionContext context) {
+        def formattedValue = entityValue.toString()
+                .replace("[", "")
+                .replace("]", "")
+                .replace(" ", "")
+        return entityValue ? formattedValue : ""
+    }
+
+    @Override
+    List<Integer> convertToEntityValue(String persistedValue, ConversionContext context) {
+        return (persistedValue && !persistedValue.empty) ? Arrays.asList(persistedValue.split(",")).stream().map(Integer::parseInt).collect(Collectors.toList()) : []
+    }
+}
diff --git a/src/main/groovy/life/qbic/variantstore/util/ListingArguments.groovy b/src/main/groovy/life/qbic/variantstore/util/ListingArguments.groovy
index e95fea4..878ea52 100644
--- a/src/main/groovy/life/qbic/variantstore/util/ListingArguments.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/ListingArguments.groovy
@@ -1,7 +1,7 @@
 package life.qbic.variantstore.util
 
-import io.micronaut.http.uri.UriBuilder;
-import javax.annotation.Nullable
+import io.micronaut.http.uri.UriBuilder
+import io.micronaut.core.annotation.Nullable
 import javax.validation.constraints.Pattern
 import javax.validation.constraints.Positive
 
@@ -29,11 +29,10 @@ class ListingArguments {
     private String cancerEntity
 
     @Nullable
-    @Pattern(regexp = '(Q[A-Z0-9]{4}[0-9]{3}[A-Z][A-Z0-9]$)|(Q[A-Z0-9]{4}ENTITY-[0-9]*$)')
+    @Pattern(regexp = '(Q[A-Z\\d]{4}\\d{3}[A-Z][A-Z\\d]$)|(Q[A-Z\\d]{4}ENTITY-\\d*$)')
     private String sampleId
 
     @Nullable
-    //TODO pattern?
     private String geneId
 
     @Nullable
@@ -50,127 +49,127 @@ class ListingArguments {
     @Pattern(regexp = "vcf|VCF")
     private String format
 
-    public ListingArguments() {
+    ListingArguments() {
 
     }
 
-    public Optional<String> getChromosome() {
+    Optional<String> getChromosome() {
         if (chromosome == null) {
             return Optional.empty()
         }
         return Optional.of(chromosome)
     }
 
-    public Optional<BigInteger> getStartPosition() {
+    Optional<BigInteger> getStartPosition() {
         if (startPosition == null) {
             return Optional.empty()
         }
         return Optional.of(startPosition)
     }
 
-    public Optional<BigInteger> getEndPosition() {
+    Optional<BigInteger> getEndPosition() {
         if (endPosition == null) {
             return Optional.empty()
         }
         return Optional.of(endPosition)
     }
 
-    public Optional<String> getCancerEntity() {
+    Optional<String> getCancerEntity() {
         if (cancerEntity == null) {
             return Optional.empty()
         }
         return Optional.of(cancerEntity)
     }
 
-    public Optional<String> getSampleId() {
+    Optional<String> getSampleId() {
         if (sampleId == null) {
             return Optional.empty()
         }
         return Optional.of(sampleId)
     }
 
-    public Optional<String> getGeneId() {
+    Optional<String> getGeneId() {
         if (geneId == null) {
             return Optional.empty()
         }
         return Optional.of(geneId)
     }
 
-    public Optional<String> getGene() {
+    Optional<String> getGene() {
         if (gene == null) {
             return Optional.empty()
         }
         return Optional.of(gene)
     }
 
-    public Optional<String> getConsequenceType() {
+    Optional<String> getConsequenceType() {
         if (consequenceType == null) {
             return Optional.empty()
         }
         return Optional.of(consequenceType)
     }
 
-    public Optional<Integer> getEnsemblVersion() {
+    Optional<Integer> getEnsemblVersion() {
         if (ensemblVersion == null) {
             return Optional.empty()
         }
         return Optional.of(ensemblVersion)
     }
 
-    public Optional<String> getFormat() {
+    Optional<String> getFormat() {
         if (format == null) {
             return Optional.empty()
         }
         return Optional.of(format)
     }
 
-    public void setChromosome(@Nullable String chromosome) {
+    void setChromosome(@Nullable String chromosome) {
         this.chromosome = chromosome
     }
 
-    public void setStartPosition(@Nullable BigInteger startPosition) {
+    void setStartPosition(@Nullable BigInteger startPosition) {
         this.startPosition = startPosition
     }
 
-    public void setEndPosition(@Nullable BigInteger endPosition) {
+    void setEndPosition(@Nullable BigInteger endPosition) {
         this.endPosition = endPosition
     }
 
-    public void setCancerEntity(@Nullable String cancerEntity) {
+    void setCancerEntity(@Nullable String cancerEntity) {
         this.cancerEntity = cancerEntity
     }
 
-    public void setSampleId(@Nullable String sampleId) {
+    void setSampleId(@Nullable String sampleId) {
         this.sampleId = sampleId
     }
 
-    public void setGeneId(@Nullable String geneId) {
+    void setGeneId(@Nullable String geneId) {
         this.geneId = geneId
     }
 
-    public void setGene(@Nullable String gene) {
+    void setGene(@Nullable String gene) {
         this.gene = gene
     }
 
-    public void setConsequenceType(@Nullable String consequenceType) {
+    void setConsequenceType(@Nullable String consequenceType) {
         this.consequenceType = consequenceType
     }
 
-    public void setEnsemblVersion(@Nullable Integer ensemblVersion) {
+    void setEnsemblVersion(@Nullable Integer ensemblVersion) {
         this.ensemblVersion = ensemblVersion
     }
 
-    public void setFormat(@Nullable String format) {
+    void setFormat(@Nullable String format) {
         this.format = format
     }
 
-    public static Builder builder() {
+    static Builder builder() {
         return new Builder()
     }
 
-    public URI of(UriBuilder uriBuilder) {
+    URI of(UriBuilder uriBuilder) {
         if (chromosome != null) {
-            uriBuilder.queryParam("chromosome", chromosome);
+            uriBuilder.queryParam("chromosome", chromosome)
         }
 
         if (startPosition != null) {
@@ -209,67 +208,67 @@ class ListingArguments {
             uriBuilder.queryParam("format", format)
         }
 
-        return uriBuilder.build();
+        return uriBuilder.build()
     }
 
-    public static final class Builder {
+    static final class Builder {
         private ListingArguments args = new ListingArguments()
 
         private Builder() {
 
         }
 
-        public Builder chromosome(String chromosome) {
+        Builder chromosome(String chromosome) {
             args.setChromosome(chromosome)
             return this
         }
 
-        public Builder startPosition(BigInteger startPosition) {
+        Builder startPosition(BigInteger startPosition) {
             args.setStartPosition(startPosition)
             return this
         }
 
-        public Builder endPosition(BigInteger endPosition) {
+        Builder endPosition(BigInteger endPosition) {
             args.setEndPosition(endPosition)
             return this
         }
 
-        public Builder cancerEntity(String cancerEntity) {
+        Builder cancerEntity(String cancerEntity) {
             args.setCancerEntity(cancerEntity)
             return this
         }
 
-        public Builder sampleId(String sampleId) {
+        Builder sampleId(String sampleId) {
             args.setSampleId(sampleId)
             return this
         }
 
-        public Builder geneId(String geneId) {
+        Builder geneId(String geneId) {
             args.setGeneId(geneId)
             return this
         }
 
-        public Builder gene(String gene) {
+        Builder gene(String gene) {
             args.setGene(gene)
             return this
         }
 
-        public Builder consequenceType(String consequenceType) {
+        Builder consequenceType(String consequenceType) {
             args.setConsequenceType(consequenceType)
             return this
         }
 
-        public Builder ensemblVersion(Integer ensemblVersion) {
+        Builder ensemblVersion(Integer ensemblVersion) {
             args.setEnsemblVersion(ensemblVersion)
             return this
         }
 
-        public Builder format(String format) {
+        Builder format(String format) {
             args.setFormat(format)
             return this
         }
 
-        public ListingArguments build() {
+        ListingArguments build() {
             return this.args
         }
     }
diff --git a/src/main/groovy/life/qbic/variantstore/util/VariantExporter.groovy b/src/main/groovy/life/qbic/variantstore/util/VariantExporter.groovy
index d5a6d43..8d88980 100644
--- a/src/main/groovy/life/qbic/variantstore/util/VariantExporter.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/VariantExporter.groovy
@@ -2,13 +2,13 @@ package life.qbic.variantstore.util
 
 import ca.uhn.fhir.context.FhirContext
 import life.qbic.variantstore.model.SimpleVariantContext
-import life.qbic.variantstore.model.Variant
 import org.hl7.fhir.r4.model.*
 import org.hl7.fhir.r4.model.codesystems.ObservationCategory
 import java.time.Instant
 
 /**
- * An exporter class to generate variant content in various formats, such as Variant Call Format and FHIR (experimental)
+ * An exporter class to generate variant content in various formats, such as Variant Call Format and FHIR.
+ * FHIR exporter experimental.
  *
  * @since: 1.0.0
  */
@@ -30,8 +30,9 @@ class VariantExporter {
      * @param variants the variants to export
      * @return variants in Variant Call Format representation
      */
-    static String exportVariantsToVCF(List<SimpleVariantContext> variants, Boolean withConsequences, Boolean withGenotypes, String
-            referenceGenome, String annotationSoftware, String annotationSoftwareVersion, String version) {
+    static String exportVariantsToVCF(List<SimpleVariantContext> variants, Boolean withConsequences, Boolean withGenotypes,
+                                      String referenceGenome, String annotationSoftware, String annotationSoftwareVersion,
+                                      String version) {
         def vcfContent = new StringBuilder()
         def date = new Date().format('yyyyMMdd')
 
@@ -83,7 +84,7 @@ class VariantExporter {
      * @param variants the variants to export in FHIR
      * @return variants in FHIR representation
      */
-    static String exportVariantsToFHIR(List<Variant> variants, Boolean withConsequences, String referenceGenome) {
+    static String exportVariantsToFHIR(List<SimpleVariantContext> variants, Boolean withConsequences, String referenceGenome) {
         // @TODO get patient ID if needed
         def patientReference = new Reference(new Patient().setIdentifier([new Identifier().setValue("#patient")]))
 
@@ -151,8 +152,8 @@ class VariantExporter {
                     // @TODO how to get gene HGNC? For now lets us the available identifier
                     // @TODO should we collect all gene Ids ?
                     // the HGNC gene symbol as the display text and HGNC gene ID
-                    value = new CodeableConcept(new Coding("http://www.genenames.org/geneId", variant.consequences
-                            .get(0).geneId, variant.consequences.get(0).geneSymbol))
+                    value = new CodeableConcept(new Coding("http://www.genenames.org/geneId",
+                            variant.consequences.get(0).geneId, variant.consequences.get(0).geneSymbol))
                 })
             }
 
@@ -191,7 +192,7 @@ class VariantExporter {
             genomicSourceComponent.code = new CodeableConcept(new Coding("http://loinc.org", "48002-0", "Genomic " +
                     "source class"))
             // do we need any other type?
-            if (variant.isSomatic) {
+            if (variant.somatic) {
                 genomicSourceComponent.value = new CodeableConcept(new Coding("http://loinc.org", "LA6684-0",
                         "Somatic"))
             } else {
diff --git a/src/main/groovy/life/qbic/variantstore/util/VcfConstants.groovy b/src/main/groovy/life/qbic/variantstore/util/VcfConstants.groovy
index 34278c8..108b624 100644
--- a/src/main/groovy/life/qbic/variantstore/util/VcfConstants.groovy
+++ b/src/main/groovy/life/qbic/variantstore/util/VcfConstants.groovy
@@ -7,6 +7,12 @@ package life.qbic.variantstore.util
  */
 class VcfConstants {
 
+    /**
+     * Sample types
+     */
+    public static final String TUMOR = "TUMOR"
+    public static final String NORMAL = "NORMAL"
+
     /**
      * A delimiter for property values
      */
diff --git a/src/main/resources/application.yml b/src/main/resources/application.yml
index 837530c..0caccb2 100644
--- a/src/main/resources/application.yml
+++ b/src/main/resources/application.yml
@@ -3,14 +3,18 @@ micronaut:
     name: variantstore
   server:
     port: ${variantstore-port:8080}
-    maxRequestSize: 100MB
+    ssl:
+      enabled: ${variantstore-ssl-enabled:false}
+      buildSelfSigned: ${variantstore-ss-selfsigned:false}
+    maxRequestSize: 500MB
     multipart:
-      maxFileSize: 100MB
-  logger:
-    levels:
-      ROOT: INFO
+      maxFileSize: 500MB
+    thread-selection: AUTO
   router:
     static-resources:
+      webjars:
+        paths: classpath:META-INF/resources/webjars
+        mapping: /webjars/**
       swagger:
         paths: classpath:META-INF/swagger
         mapping: /swagger/**
@@ -20,8 +24,12 @@ micronaut:
       rapidoc:
         paths: classpath:META-INF/swagger/views/rapidoc
         mapping: /rapidoc/**
+      css:
+        paths: classpath:static/css
+        mapping: /css/**
   security:
     enabled: ${variantstore-security-enabled:true}
+    authentication: ${variantstore-authentication-mode:idtoken}
     intercept-url-map:
       - pattern: /swagger/**
         http-method: GET
@@ -35,6 +43,14 @@ micronaut:
         http-method: GET
         access:
           - isAnonymous()
+      - pattern: /webjars/**
+        http-method: GET
+        access:
+          - isAnonymous()
+      - pattern: /css/**
+        http-method: GET
+        access:
+          - isAnonymous()
     endpoints:
       login:
         enabled: true
@@ -63,16 +79,55 @@ micronaut:
             url: ${variantstore-oauth2-token-url}
             auth-method: client-secret-jwt
 datasources:
-  default:
-    url: jdbc:mariadb://${db-host}/${db-name}?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
-    username: ${db-user}
-    password: ${db-pwd}
-    driverClassName: org.mariadb.jdbc.Driver
+  variantstore_postgres:
+    url: jdbc:postgresql://${db-host:""}/${db-name:""}?currentSchema=variantstore
+    username: ${db-user:""}
+    password: ${db-pwd:""}
+    driverClassName: org.postgresql.Driver
   transactions:
-    url: jdbc:mariadb://${db-host}/transactions?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
-    username: ${db-user}
-    password: ${db-pwd}
-    driverClassName: org.mariadb.jdbc.Driver
+    url: jdbc:postgresql://${db-transaction-host:""}/${db-transaction-name:""}?currentSchema=transactions
+    username: ${db-transaction-user:""}
+    password: ${db-transaction-pwd:""}
+    driverClassName: org.postgresql.Driver
+  #variantstore_mariadb:
+  #  url: jdbc:mariadb://${db-host:""}/${db-name:""}?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
+  #  username: ${db-user:""}
+  #  password: ${db-pwd:""}
+  #  driverClassName: org.mariadb.jdbc.Driver
+  #transactions_mariadb:
+  #  url: jdbc:mariadb://${db-transaction-host:""}/${db-transaction-name:""}?maxPoolSize=30&pool=true&useServerPrepStmts=false&rewriteBatchedStatements=true
+  #  username: ${db-transaction-user:""}
+  #  password: ${db-transaction-pwd:""}
+  #  driverClassName: org.mariadb.jdbc.Driver
+database:
+  specifier: variantstore-postgres
+  max-variants-per-batch: ${max-number-variants-per-batch:250000}
+flyway:
+  datasources:
+    variantstore_postgres:
+      enabled: true
+      baselineOnMigrate: true
+      locations: classpath:db/postgresql
+      default-schema: variantstore
+      schemas: variantstore
+    transactions:
+      enabled: true
+      baselineOnMigrate: true
+      locations: classpath:db/transactions
+      default-schema: transactions
+      schemas: transactions
+    variantstore_mariadb:
+      enabled: false
+      baselineOnMigrate: true
+      locations: classpath:db/mariadb
+      default-schema: variantstore
+      schemas: variantstore
+    transactions_mariadb:
+      enabled: false
+      baselineOnMigrate: true
+      locations: classpath:db/transactions_mariadb
+      default-schema: transactions
+      schemas: transactions
 endpoints:
   health:
     enabled: true
@@ -87,5 +142,6 @@ endpoints:
   info:
     enabled: true
     sensitive: false
-userroles:
-  config: ${userrole-config:src/main/resources/test.yml}
\ No newline at end of file
+  flyway:
+    enabled: true
+    sensitive: false
diff --git a/src/main/resources/db/mariadb/V1__variantstore-model-mariadb.sql b/src/main/resources/db/mariadb/V1__variantstore-model-mariadb.sql
new file mode 100644
index 0000000..574d564
--- /dev/null
+++ b/src/main/resources/db/mariadb/V1__variantstore-model-mariadb.sql
@@ -0,0 +1,462 @@
+-- MySQL Script generated by MySQL Workbench
+-- Mon Mar  1 18:23:09 2021
+-- Model: New Model    Version: 1.0
+-- MySQL Workbench Forward Engineering
+
+SET @OLD_UNIQUE_CHECKS=@@UNIQUE_CHECKS, UNIQUE_CHECKS=0;
+SET @OLD_FOREIGN_KEY_CHECKS=@@FOREIGN_KEY_CHECKS, FOREIGN_KEY_CHECKS=0;
+SET @OLD_SQL_MODE=@@SQL_MODE, SQL_MODE='ONLY_FULL_GROUP_BY,STRICT_TRANS_TABLES,NO_ZERO_IN_DATE,NO_ZERO_DATE,ERROR_FOR_DIVISION_BY_ZERO,NO_ENGINE_SUBSTITUTION';
+
+-- -----------------------------------------------------
+-- Schema variantstore_db
+-- -----------------------------------------------------
+DROP SCHEMA IF EXISTS `variantstore_db` ;
+
+-- -----------------------------------------------------
+-- Schema variantstore_db
+-- -----------------------------------------------------
+CREATE SCHEMA IF NOT EXISTS `variantstore_db` DEFAULT CHARACTER SET utf8 ;
+USE `variantstore_db` ;
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`gene`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`gene` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`gene` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `symbol` VARCHAR(25) NULL,
+  `name` VARCHAR(255) NULL,
+  `biotype` VARCHAR(45) NULL,
+  `chr` VARCHAR(15) NULL,
+  `start` BIGINT NULL,
+  `end` BIGINT NULL,
+  `synonyms` VARCHAR(45) NULL,
+  `geneid` VARCHAR(45) NULL,
+  `description` VARCHAR(255) NULL,
+  `strand` VARCHAR(1) NULL,
+  `version` INT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `gene_idx` (`geneid` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`variant`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`variant` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`variant` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `chr` VARCHAR(15) NOT NULL,
+  `start` BIGINT NOT NULL,
+  `end` BIGINT NOT NULL,
+  `ref` VARCHAR(255) NOT NULL,
+  `obs` VARCHAR(255) NOT NULL,
+  `issomatic` TINYINT NOT NULL,
+  `uuid` VARCHAR(36) NOT NULL,
+  `databaseidentifier` VARCHAR(45) NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `variant_idx` (`chr` ASC, `start` ASC, `end` ASC, `ref`(255) ASC, `obs`(255) ASC, `issomatic` ASC, `databaseidentifier` ASC),
+  INDEX `variant_idx_start` (`start` ASC),
+  INDEX `variant_idx_chr` (`chr` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`consequence`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`consequence` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`consequence` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `allele` VARCHAR(80) NULL,
+  `codingchange` VARCHAR(179) NULL,
+  `transcriptid` VARCHAR(80) NOT NULL,
+  `transcriptversion` INT NULL,
+  `type` VARCHAR(128) NOT NULL,
+  `biotype` VARCHAR(45) NOT NULL,
+  `canonical` TINYINT NULL,
+  `aachange` VARCHAR(179) NULL,
+  `cdnaposition` VARCHAR(45) NULL,
+  `cdsposition` VARCHAR(45) NULL,
+  `proteinposition` VARCHAR(45) NULL,
+  `proteinlength` INT NULL,
+  `cdnalength` INT NULL,
+  `cdslength` INT NULL,
+  `impact` VARCHAR(25) NOT NULL,
+  `exon` VARCHAR(45) NULL,
+  `intron` VARCHAR(45) NULL,
+  `strand` INT NULL,
+  `genesymbol` VARCHAR(45) NULL,
+  `featuretype` VARCHAR(179) NULL,
+  `distance` INT NULL,
+  `warnings` VARCHAR(255) NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `fk_idx` (`codingchange` ASC, `proteinposition` ASC, `proteinlength` ASC, `type` ASC, `impact` ASC, `strand` ASC, `transcriptid` ASC, `transcriptversion` ASC, `canonical` ASC, `biotype` ASC, `cdnaposition` ASC, `cdsposition` ASC, `cdnalength` ASC, `cdslength` ASC, `genesymbol` ASC, `featuretype` ASC, `distance` ASC, `allele` ASC, `exon` ASC, `intron` ASC),
+  INDEX `consequence_idx_genesymbol` (`genesymbol` ASC),
+  INDEX `consequence_idx_type` (`type` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`referencegenome`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`referencegenome` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`referencegenome` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `source` VARCHAR(45) NULL,
+  `build` VARCHAR(45) NULL,
+  `version` VARCHAR(45) NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `rf_idx` (`source` ASC, `build` ASC, `version` ASC),
+  INDEX `referencegenome_idx_build_id` (`build` ASC, `id` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`annotationsoftware`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`annotationsoftware` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`annotationsoftware` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `name` VARCHAR(45) NOT NULL,
+  `version` VARCHAR(30) NOT NULL,
+  `doi` VARCHAR(30) NOT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `fk_idx` (`name` ASC, `version` ASC, `doi` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`project`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`project` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`project` (
+  `id` VARCHAR(15) NOT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `project_index` (`id` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`entity`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`entity` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`entity` (
+  `id` VARCHAR(15) NOT NULL,
+  `project_id` VARCHAR(15) NULL,
+  PRIMARY KEY (`id`),
+  INDEX `fk_vase_project_idx` (`project_id` ASC),
+  UNIQUE INDEX `entity_index` (`id` ASC),
+  CONSTRAINT `fk_Case_Project1`
+    FOREIGN KEY (`project_id`)
+    REFERENCES `variantstore_db`.`project` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`variantcaller`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`variantcaller` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`variantcaller` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `name` VARCHAR(45) NOT NULL,
+  `version` VARCHAR(30) NOT NULL,
+  `doi` VARCHAR(30) NOT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `fk_idx` (`name` ASC, `version` ASC, `doi` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`sample`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`sample` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`sample` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `identifier` VARCHAR(15) NULL,
+  `entity_id` VARCHAR(15) NULL,
+  `cancerentity` VARCHAR(45) NULL,
+  INDEX `fk_sample_case_idx` (`entity_id` ASC),
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `fk_idx` (`identifier` ASC, `entity_id` ASC, `cancerentity` ASC),
+  CONSTRAINT `fk_Sample_Case1`
+    FOREIGN KEY (`entity_id`)
+    REFERENCES `variantstore_db`.`entity` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`annotationsoftware_has_consequence`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`annotationsoftware_has_consequence` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`annotationsoftware_has_consequence` (
+  `annotationsoftware_id` INT NOT NULL,
+  `consequence_id` INT NOT NULL,
+  INDEX `fk_annotationsoftware_has_consequence_consequence_idx` (`consequence_id` ASC),
+  INDEX `fk_annotationsoftware_has_consequence_annotationsoftware_idx` (`annotationsoftware_id` ASC),
+  UNIQUE INDEX `fk_idx` (`annotationsoftware_id` ASC, `consequence_id` ASC),
+  CONSTRAINT `fk_AnnotationSoftware_has_Consequence_AnnotationSoftware1`
+    FOREIGN KEY (`annotationsoftware_id`)
+    REFERENCES `variantstore_db`.`annotationsoftware` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_AnnotationSoftware_has_Consequence_Consequence1`
+    FOREIGN KEY (`consequence_id`)
+    REFERENCES `variantstore_db`.`consequence` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`variant_has_referencegenome`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`variant_has_referencegenome` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`variant_has_referencegenome` (
+  `variant_id` INT NOT NULL,
+  `referencegenome_id` INT NOT NULL,
+  INDEX `fk_Variant_has_ReferenceGenome_ReferenceGenome1_idx` (`referencegenome_id` ASC),
+  INDEX `fk_Variant_has_ReferenceGenome_Variant1_idx` (`variant_id` ASC),
+  UNIQUE INDEX `idx_variant_rg_unique` (`variant_id` ASC, `referencegenome_id` ASC),
+  CONSTRAINT `fk_Variant_has_ReferenceGenome_Variant1`
+    FOREIGN KEY (`variant_id`)
+    REFERENCES `variantstore_db`.`variant` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_Variant_has_ReferenceGenome_ReferenceGenome1`
+    FOREIGN KEY (`referencegenome_id`)
+    REFERENCES `variantstore_db`.`referencegenome` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`variant_has_consequence`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`variant_has_consequence` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`variant_has_consequence` (
+  `variant_id` INT NOT NULL,
+  `consequence_id` INT NOT NULL,
+  INDEX `fk_variant_has_consequence_consequence_idx` (`consequence_id` ASC),
+  INDEX `fk_variant_has_consequence_variant_idx` (`variant_id` ASC),
+  UNIQUE INDEX `fk_idx` (`variant_id` ASC, `consequence_id` ASC),
+  CONSTRAINT `fk_Variant_has_Consequence_Variant1`
+    FOREIGN KEY (`variant_id`)
+    REFERENCES `variantstore_db`.`variant` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_Variant_has_Consequence_Consequence1`
+    FOREIGN KEY (`consequence_id`)
+    REFERENCES `variantstore_db`.`consequence` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`variant_has_variantcaller`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`variant_has_variantcaller` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`variant_has_variantcaller` (
+  `variantcaller_id` INT NOT NULL,
+  `variant_id` INT NOT NULL,
+  INDEX `fk_variant_has_variantcaller_variantcaller_idx` (`variantcaller_id` ASC),
+  INDEX `fk_variant_has_variantcaller_variant_idx` (`variant_id` ASC),
+  UNIQUE INDEX `fk_idx` (`variant_id` ASC, `variantcaller_id` ASC),
+  CONSTRAINT `fk_Variant_has_VariantCaller_Variant1`
+    FOREIGN KEY (`variant_id`)
+    REFERENCES `variantstore_db`.`variant` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_Variant_has_VariantCaller_VariantCaller1`
+    FOREIGN KEY (`variantcaller_id`)
+    REFERENCES `variantstore_db`.`variantcaller` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`ensembl`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`ensembl` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`ensembl` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `version` INT NULL,
+  `date` VARCHAR(45) NULL,
+  `referencegenome_id` INT NOT NULL,
+  PRIMARY KEY (`id`),
+  INDEX `fk_ensembl_referencegenome_idx` (`referencegenome_id` ASC),
+  UNIQUE INDEX `ensembl_index` (`version` ASC, `date` ASC),
+  CONSTRAINT `fk_Ensembl_ReferenceGenome1`
+    FOREIGN KEY (`referencegenome_id`)
+    REFERENCES `variantstore_db`.`referencegenome` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`consequence_has_gene`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`consequence_has_gene` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`consequence_has_gene` (
+  `consequence_id` INT NOT NULL,
+  `gene_id` INT NOT NULL,
+  INDEX `fk_consequence_has_gene_gene_idx` (`gene_id` ASC),
+  INDEX `fk_consequence_has_gene_consequence_idx` (`consequence_id` ASC),
+  UNIQUE INDEX `fk_idx` (`consequence_id` ASC, `gene_id` ASC),
+  CONSTRAINT `fk_Consequence_has_Gene_Consequence1`
+    FOREIGN KEY (`consequence_id`)
+    REFERENCES `variantstore_db`.`consequence` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_Consequence_has_Gene_Gene1`
+    FOREIGN KEY (`gene_id`)
+    REFERENCES `variantstore_db`.`gene` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`ensembl_has_gene`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`ensembl_has_gene` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`ensembl_has_gene` (
+  `ensembl_id` INT NOT NULL,
+  `gene_id` INT NOT NULL,
+  PRIMARY KEY (`ensembl_id`, `gene_id`),
+  INDEX `fk_ensembl_has_gene_gene_idx` (`gene_id` ASC),
+  INDEX `fk_ensembl_has_gene_ensembl_idx` (`ensembl_id` ASC),
+  CONSTRAINT `fk_Ensembl_has_Gene_Ensembl1`
+    FOREIGN KEY (`ensembl_id`)
+    REFERENCES `variantstore_db`.`ensembl` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_Ensembl_has_Gene_Gene1`
+    FOREIGN KEY (`gene_id`)
+    REFERENCES `variantstore_db`.`gene` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`vcfinfo`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`vcfinfo` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`vcfinfo` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `ancestralallele` VARCHAR(45) NULL,
+  `allelecount` VARCHAR(45) NULL,
+  `allelefrequency` VARCHAR(45) NULL,
+  `numberalleles` INT NULL,
+  `basequality` INT NULL,
+  `cigar` VARCHAR(45) NULL,
+  `dbsnp` TINYINT NULL,
+  `hapmaptwo` TINYINT NULL,
+  `hapmapthree` TINYINT NULL,
+  `thousandgenomes` TINYINT NULL,
+  `combineddepth` INT NULL,
+  `endpos` INT NULL,
+  `rms` INT NULL,
+  `mqzero` INT NULL,
+  `strandbias` INT NULL,
+  `numbersamples` INT NULL,
+  `somatic` TINYINT NULL,
+  `validated` TINYINT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `info_idx` (`ancestralallele` ASC, `allelecount` ASC, `allelefrequency` ASC, `numberalleles` ASC, `basequality` ASC, `cigar` ASC, `dbsnp` ASC, `hapmaptwo` ASC, `hapmapthree` ASC, `thousandgenomes` ASC, `combineddepth` ASC, `endpos` ASC, `rms` ASC, `mqzero` ASC, `strandbias` ASC, `numbersamples` ASC, `somatic` ASC, `validated` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`genotype`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`genotype` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`genotype` (
+  `id` INT NOT NULL AUTO_INCREMENT,
+  `genotype` VARCHAR(45) NULL,
+  `readdepth` INT NULL,
+  `filter` VARCHAR(45) NULL,
+  `likelihoods` VARCHAR(45) NULL,
+  `genotypelikelihoods` VARCHAR(45) NULL,
+  `genotypelikelihoodshet` VARCHAR(45) NULL,
+  `posteriorprobs` VARCHAR(45) NULL,
+  `genotypequality` INT NULL,
+  `haplotypequalities` VARCHAR(45) NULL,
+  `phaseset` VARCHAR(45) NULL,
+  `phasingquality` INT NULL,
+  `alternateallelecounts` VARCHAR(45) NULL,
+  `mappingquality` INT NULL,
+  PRIMARY KEY (`id`),
+  UNIQUE INDEX `genotype_idx` (`genotype` ASC, `readdepth` ASC, `filter` ASC, `likelihoods` ASC, `genotypelikelihoods` ASC, `genotypelikelihoodshet` ASC, `genotypequality` ASC, `haplotypequalities` ASC, `phaseset` ASC, `phasingquality` ASC, `alternateallelecounts` ASC, `mappingquality` ASC, `posteriorprobs` ASC))
+ENGINE = InnoDB;
+
+
+-- -----------------------------------------------------
+-- Table `variantstore_db`.`sample_has_variant`
+-- -----------------------------------------------------
+DROP TABLE IF EXISTS `variantstore_db`.`sample_has_variant` ;
+
+CREATE TABLE IF NOT EXISTS `variantstore_db`.`sample_has_variant` (
+  `sample_id` INT NOT NULL,
+  `variant_id` INT NOT NULL,
+  `vcfinfo_id` INT NOT NULL,
+  `genotype_id` INT NOT NULL,
+  INDEX `fk_sample_has_variant_variant_idx` (`variant_id` ASC),
+  INDEX `fk_sample_has_variant_vcfinfo1_idx` (`vcfinfo_id` ASC),
+  INDEX `fk_sample_has_variant_genotype1_idx` (`genotype_id` ASC),
+  INDEX `fk_sample_has_variant_sample1_idx` (`sample_id` ASC),
+  UNIQUE INDEX `idx_svvg_unique` (`sample_id` ASC, `variant_id` ASC, `vcfinfo_id` ASC, `genotype_id` ASC),
+  INDEX `idx_sample_variant` (`sample_id` ASC, `variant_id` ASC),
+  INDEX `idx_variant_sample` (`variant_id` ASC, `sample_id` ASC),
+  CONSTRAINT `fk_Sample_has_Variant_Variant1`
+    FOREIGN KEY (`variant_id`)
+    REFERENCES `variantstore_db`.`variant` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_sample_has_variant_vcfinfo1`
+    FOREIGN KEY (`vcfinfo_id`)
+    REFERENCES `variantstore_db`.`vcfinfo` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_sample_has_variant_genotype1`
+    FOREIGN KEY (`genotype_id`)
+    REFERENCES `variantstore_db`.`genotype` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION,
+  CONSTRAINT `fk_sample_has_variant_sample1`
+    FOREIGN KEY (`sample_id`)
+    REFERENCES `variantstore_db`.`sample` (`id`)
+    ON DELETE NO ACTION
+    ON UPDATE NO ACTION)
+ENGINE = InnoDB;
+
+
+SET SQL_MODE=@OLD_SQL_MODE;
+SET FOREIGN_KEY_CHECKS=@OLD_FOREIGN_KEY_CHECKS;
+SET UNIQUE_CHECKS=@OLD_UNIQUE_CHECKS;
diff --git a/src/main/resources/db/postgresql/V1__variantstore-model-postgres.sql b/src/main/resources/db/postgresql/V1__variantstore-model-postgres.sql
new file mode 100644
index 0000000..eefd0d7
--- /dev/null
+++ b/src/main/resources/db/postgresql/V1__variantstore-model-postgres.sql
@@ -0,0 +1,710 @@
+--
+-- PostgreSQL database dump
+--
+
+-- Dumped from database version 13.2
+-- Dumped by pg_dump version 13.2
+
+CREATE SCHEMA IF NOT EXISTS variantstore;
+
+SET SCHEMA 'variantstore';
+
+--
+-- Name: project; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE project (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying NOT NULL
+);
+
+--
+-- Name: annotationsoftware; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+--
+-- Name: annotationsoftware_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware_consequence (
+    consequence_id bigint NOT NULL,
+    annotationsoftware_id bigint NOT NULL
+);
+
+--
+-- Name: consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE consequence (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    allele character varying,
+    codingchange character varying,
+    transcriptid character varying,
+    transcriptversion integer,
+    type character varying,
+    biotype character varying,
+    canonical boolean,
+    aachange character varying,
+    cdnaposition character varying,
+    cdsposition character varying,
+    proteinposition character varying,
+    proteinlength integer,
+    cdnalength integer,
+    cdslength integer,
+    impact character varying,
+    exon character varying,
+    intron character varying,
+    strand integer,
+    genesymbol character varying,
+    featuretype character varying,
+    distance integer,
+    warnings character varying
+);
+
+--
+-- Name: ensembl; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    version integer,
+    date character varying,
+    referencegenome_id bigint
+);
+
+--
+-- Name: ensembl_gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl_gene (
+    ensembl_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+--
+-- Name: entity; Type: TABLE; Schema: variantstore;
+-- id character varying NOT NULL,
+
+CREATE TABLE entity (
+    id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    project_id bigint NOT NULL
+);
+
+--
+-- Name: gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    symbol character varying,
+    name character varying,
+    biotype character varying,
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    synonyms character varying[],
+    geneid character varying,
+    description character varying,
+    strand character varying,
+    version integer
+);
+
+--
+-- Name: gene_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene_consequence (
+    consequence_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+--
+-- Name: genotype; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE genotype (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    genotype character varying,
+    readdepth integer,
+    filter character varying,
+    likelihoods character varying,
+    genotypelikelihoods character varying,
+    genotypelikelihoodshet character varying,
+    posteriorprobs character varying,
+    genotypequality integer,
+    haplotypequalities character varying,
+    phaseset character varying,
+    phasingquality integer,
+    alternateallelecounts character varying,
+    mappingquality integer
+);
+
+--
+-- Name: referencegenome; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    source character varying,
+    build character varying,
+    version character varying
+);
+
+--
+-- Name: referencegenome_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome_variant (
+    referencegenome_id bigint NOT NULL,
+    variant_id bigint NOT NULL
+);
+
+--
+-- Name: sample; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    cancerentity character varying,
+    entity_id bigint
+);
+
+--
+-- Name: sample_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample_variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    sample_id bigint,
+    variant_id bigint,
+    vcfinfo_id bigint,
+    genotype_id bigint
+);
+
+--
+-- Name: variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    ref character varying,
+    obs character varying,
+    somatic boolean,
+    identifier character varying,
+    databaseidentifier character varying
+);
+
+--
+-- Name: variant_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant_consequence (
+    variant_id bigint NOT NULL,
+    consequence_id bigint NOT NULL
+);
+
+--
+-- Name: variantcaller; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+--
+-- Name: variantcaller_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller_variant (
+    variant_id bigint NOT NULL,
+    variantcaller_id bigint NOT NULL
+);
+
+--
+-- Name: vcfinfo; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE vcfinfo (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    ancestralallele character varying,
+    allelecount character varying,
+    allelefrequency character varying,
+    numberalleles integer,
+    basequality integer,
+    cigar character varying,
+    dbsnp boolean,
+    hapmaptwo boolean,
+    hapmapthree boolean,
+    thousandgenomes boolean,
+    combineddepth integer,
+    endpos integer,
+    rms float8,
+    mqzero integer,
+    strandbias integer,
+    numbersamples integer,
+    somatic boolean,
+    validated boolean
+);
+
+--
+-- Name: annotationsoftware annotationsoftware_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware
+    ADD CONSTRAINT annotationsoftware_pkey PRIMARY KEY (id);
+
+--
+-- Name: consequence consequence_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY consequence
+    ADD CONSTRAINT consequence_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: ensembl ensembl_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: entity entity_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: gene gene_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene
+    ADD CONSTRAINT gene_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: genotype genotype_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY genotype
+    ADD CONSTRAINT genotype_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: project project_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY project
+    ADD CONSTRAINT project_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: referencegenome referencegenome_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome
+    ADD CONSTRAINT referencegenome_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: sample sample_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variant variant_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variant
+    ADD CONSTRAINT variant_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variantcaller variantcaller_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller
+    ADD CONSTRAINT variantcaller_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: vcfinfo vcfinfo_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY vcfinfo
+    ADD CONSTRAINT vcfinfo_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: as_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX as_unique ON annotationsoftware USING btree (name, version, doi);
+
+
+--
+-- Name: ascons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ascons_unique ON annotationsoftware_consequence USING btree (consequence_id, annotationsoftware_id);
+
+
+--
+-- Name: cons_gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_gene_unique ON gene_consequence USING btree (gene_id, consequence_id);
+
+
+--
+-- Name: cons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_unique ON consequence USING btree (allele, codingchange, transcriptid, transcriptversion, type, biotype, canonical, aachange, cdnaposition, cdsposition, proteinposition, proteinlength, cdnalength, cdslength, impact, exon, intron, strand, genesymbol, featuretype, distance);
+
+
+--
+-- Name: ensembl_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ensembl_unique ON ensembl USING btree (version, date, referencegenome_id);
+
+--
+-- Name: gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX gene_unique ON gene USING btree (geneid);
+
+
+--
+-- Name: genotype_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX genotype_unique ON genotype USING btree (genotype, readdepth, filter, likelihoods, genotypelikelihoods, genotypelikelihoodshet, posteriorprobs, genotypequality, haplotypequalities, phaseset, phasingquality, alternateallelecounts, mappingquality);
+
+
+--
+-- Name: idx_chromosome; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_chromosome ON variant USING btree (chr);
+
+
+--
+-- Name: idx_constype; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_constype ON consequence USING btree (type);
+
+
+--
+-- Name: idx_ensembl_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_ensembl_id ON ensembl_gene USING btree (ensembl_id);
+
+
+--
+-- Name: idx_entity_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_entity_id ON sample USING btree (entity_id);
+
+
+--
+-- Name: idx_gene_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_gene_id ON ensembl_gene USING btree (gene_id);
+
+
+--
+-- Name: idx_geneid; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_geneid ON gene USING btree (geneid);
+
+
+--
+-- Name: idx_genesymbol; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_genesymbol ON consequence USING btree (genesymbol);
+
+
+--
+-- Name: idx_rg; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg ON ensembl USING btree (referencegenome_id);
+
+
+--
+-- Name: idx_rg_build; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg_build ON referencegenome USING btree (build);
+
+
+--
+-- Name: idx_sample_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_id ON sample USING btree (identifier);
+
+
+--
+-- Name: idx_sample_variant; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_variant ON sample_variant USING btree (sample_id, variant_id);
+
+
+--
+-- Name: idx_start; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_start ON variant USING btree (start);
+
+
+--
+-- Name: idx_variant_sample; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_variant_sample ON sample_variant USING btree (variant_id, sample_id);
+
+
+--
+-- Name: rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX rg_unique ON referencegenome USING btree (source, build, version);
+
+
+--
+-- Name: sample_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_unique ON sample USING btree (identifier, cancerentity, entity_id);
+
+--
+-- Name: project_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX project_unique ON project USING btree (identifier);
+
+--
+-- Name: entity_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX entity_unique ON entity USING btree (identifier, project_id);
+
+--
+-- Name: sample_variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_variant_unique ON sample_variant USING btree (sample_id, variant_id, vcfinfo_id, genotype_id);
+
+
+--
+-- Name: variant_rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_rg_unique ON referencegenome_variant USING btree (referencegenome_id, variant_id);
+
+
+--
+-- Name: variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variant_unique ON variant USING btree (chr, start, "end", ref, obs, somatic, databaseidentifier);
+
+
+--
+-- Name: variant_vc_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_vc_unique ON variantcaller_variant USING btree (variant_id, variantcaller_id);
+
+
+--
+-- Name: variantcaller_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variantcaller_unique ON variantcaller USING btree (name, version, doi);
+
+
+--
+-- Name: vcfinfo_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX vcfinfo_unique ON vcfinfo USING btree (ancestralallele, allelecount, allelefrequency, numberalleles, basequality, cigar, dbsnp, hapmaptwo, hapmapthree, thousandgenomes, combineddepth, endpos, rms, mqzero, strandbias, numbersamples, somatic, validated);
+
+CREATE UNIQUE INDEX variant_consequence_unique ON variant_consequence USING btree (variant_id, consequence_id);
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_annotationsoftware_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_annotationsoftware_id_fkey FOREIGN KEY (annotationsoftware_id) REFERENCES annotationsoftware(id) NOT VALID;
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_ensembl_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_ensembl_id_fkey FOREIGN KEY (ensembl_id) REFERENCES ensembl(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: ensembl ensembl_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: entity entity_project_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_project_id_fkey FOREIGN KEY (project_id) REFERENCES project(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample sample_entity_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_entity_id_fkey FOREIGN KEY (entity_id) REFERENCES entity(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_genotype_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_genotype_id_fkey FOREIGN KEY (genotype_id) REFERENCES genotype(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_sample_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_sample_id_fkey FOREIGN KEY (sample_id) REFERENCES sample(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_vcfinfo_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_vcfinfo_id_fkey FOREIGN KEY (vcfinfo_id) REFERENCES vcfinfo(id) NOT VALID;
+
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variantcaller_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variantcaller_id_fkey FOREIGN KEY (variantcaller_id) REFERENCES variantcaller(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- PostgreSQL database dump complete
+--
diff --git a/src/main/resources/db/transactions/V2021__transaction-db-postgres.sql b/src/main/resources/db/transactions/V2021__transaction-db-postgres.sql
new file mode 100644
index 0000000..b01f04c
--- /dev/null
+++ b/src/main/resources/db/transactions/V2021__transaction-db-postgres.sql
@@ -0,0 +1,26 @@
+--
+-- Variantstore PostgreSQL transaction database
+--
+
+CREATE SCHEMA IF NOT EXISTS transactions;
+
+SET SCHEMA 'transactions';
+
+--
+-- Name: transaction_status; Type: TABLE; Schema: transactions;
+--
+
+CREATE TABLE transactions.transaction_status (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying,
+                         file_name character varying,
+                         file_size float,
+                         status character varying
+);
+
+--
+-- Name: transaction_status transaction_status_pkey; Type: CONSTRAINT; Schema: transactions;
+--
+
+ALTER TABLE ONLY transactions.transaction_status
+    ADD CONSTRAINT transaction_status_pkey PRIMARY KEY (id);
diff --git a/src/main/resources/db/transactions_mariadb/V2021__transaction-db.sql b/src/main/resources/db/transactions_mariadb/V2021__transaction-db.sql
new file mode 100644
index 0000000..c96a237
--- /dev/null
+++ b/src/main/resources/db/transactions_mariadb/V2021__transaction-db.sql
@@ -0,0 +1,37 @@
+-- MySQL Script generated by MySQL Workbench
+-- Tue Nov 10 09:54:21 2020
+-- Model: New Model    Version: 1.0
+-- MySQL Workbench Forward Engineering
+
+SET @OLD_UNIQUE_CHECKS=@@UNIQUE_CHECKS, UNIQUE_CHECKS=0;
+SET @OLD_FOREIGN_KEY_CHECKS=@@FOREIGN_KEY_CHECKS, FOREIGN_KEY_CHECKS=0;
+SET @OLD_SQL_MODE=@@SQL_MODE, SQL_MODE='ONLY_FULL_GROUP_BY,STRICT_TRANS_TABLES,NO_ZERO_IN_DATE,NO_ZERO_DATE,ERROR_FOR_DIVISION_BY_ZERO,NO_ENGINE_SUBSTITUTION';
+
+-- -----------------------------------------------------
+-- Schema transactions
+-- -----------------------------------------------------
+-- DROP SCHEMA IF EXISTS `transactions` ;
+
+-- -----------------------------------------------------
+-- Schema transactions
+-- -----------------------------------------------------
+-- CREATE SCHEMA IF NOT EXISTS `transactions` DEFAULT CHARACTER SET utf8 ;
+-- USE `transactions` ;
+
+-- -----------------------------------------------------
+-- Table `transactions`.`transaction_status`
+-- -----------------------------------------------------
+-- DROP TABLE IF EXISTS `transactions`.`transaction_status` ;
+
+CREATE TABLE IF NOT EXISTS transactions.transaction_status (
+  id int NOT NULL AUTO_INCREMENT,
+  identifier VARCHAR(36),
+  file_name VARCHAR(90),
+  file_size FLOAT,
+  status VARCHAR(45),
+  PRIMARY KEY (id))
+ENGINE = InnoDB;
+
+SET SQL_MODE=@OLD_SQL_MODE;
+SET FOREIGN_KEY_CHECKS=@OLD_FOREIGN_KEY_CHECKS;
+SET UNIQUE_CHECKS=@OLD_UNIQUE_CHECKS;
diff --git a/src/main/resources/log4j2.xml b/src/main/resources/log4j2.xml
deleted file mode 100644
index 3e46f1c..0000000
--- a/src/main/resources/log4j2.xml
+++ /dev/null
@@ -1,23 +0,0 @@
-<Configuration status="ERROR" shutdownHook="disable">
-    <Appenders>
-        <Console name="Console" target="SYSTEM_OUT">
-            <PatternLayout pattern="%d{dd.MM.yyyy HH:mm:ss} [%level] [%logger{1}] - %msg%n"/>
-        </Console>
-        <RollingFile
-                name="rollingFile"
-                fileName="${env:SERVICES_LOG_PATH:-/tmp}/variantstore.log"
-                filePattern="${env:SERVICES_LOG_PATH:-/tmp}/variantstore.%d{yy-MM-dd}.log.gz">
-            <PatternLayout pattern="%d{dd.MM.yyyy HH:mm:ss} [%level] [%logger{1}] - %msg%n"/>
-            <Policies>
-                <TimeBasedTriggeringPolicy interval="1"/>
-            </Policies>
-            <DefaultRolloverStrategy max="14" />
-        </RollingFile>
-    </Appenders>
-    <Loggers>
-        <Root level="all">
-            <AppenderRef ref="Console"/>
-            <AppenderRef ref="rollingFile"/>
-        </Root>
-    </Loggers>
-</Configuration>
\ No newline at end of file
diff --git a/src/main/resources/logback.xml b/src/main/resources/logback.xml
index d4d04e3..29c23b9 100644
--- a/src/main/resources/logback.xml
+++ b/src/main/resources/logback.xml
@@ -1,12 +1,31 @@
 <configuration>
     <appender name="STDOUT" class="ch.qos.logback.core.ConsoleAppender">
+        <withJansi>true</withJansi>
         <!-- encoders are assigned the type
              ch.qos.logback.classic.encoder.PatternLayoutEncoder by default -->
+        <encoder>
+            <pattern>%cyan(%d{HH:mm:ss.SSS}) %gray([%thread]) %highlight(%-5level) %magenta(%logger{36}) - %msg%n</pattern>
+        </encoder>
+    </appender>
+    <appender name="file" class="ch.qos.logback.core.rolling.RollingFileAppender">
+        <file>${env:SERVICES_LOG_PATH:-/tmp}/variantstore.log</file>
+        <rollingPolicy class="ch.qos.logback.core.rolling.TimeBasedRollingPolicy">
+        <!-- daily rollover -->
+            <fileNamePattern>"${env:SERVICES_LOG_PATH:-/tmp}/bim.%d{yyyy-MM-dd}.log</fileNamePattern>
+        </rollingPolicy>
         <encoder>
             <pattern>%d{HH:mm:ss.SSS} [%thread] %-5level %logger{36} - %msg%n</pattern>
         </encoder>
     </appender>
     <root level="info">
         <appender-ref ref="STDOUT" />
+        <appender-ref ref="file" />
     </root>
-</configuration>
\ No newline at end of file
+
+    <!-- <logger name="io.micronaut.data.query" level="trace" /> -->
+    <logger name="io.micronaut.flyway" level="trace"/>
+    <!-- <logger name="io.micronaut.context.condition" level="trace"/> -->
+    <logger name="io.micronaut.http.client" level="trace" />
+    <!-- <logger name="io.netty.handler.logging" level="trace" /> -->
+    <!-- <logger name="io.micronaut.http.server.netty" level="trace" /> -->
+</configuration>
diff --git a/src/main/resources/micronaut-banner.txt b/src/main/resources/micronaut-banner.txt
new file mode 100644
index 0000000..3ef6f7d
--- /dev/null
+++ b/src/main/resources/micronaut-banner.txt
@@ -0,0 +1,5 @@
+ __     __         _             _       _                 
+ \ \   / /_ _ _ __(_) __ _ _ __ | |_ ___| |_ ___  _ __ ___ 
+  \ \ / / _` | '__| |/ _` | '_ \| __/ __| __/ _ \| '__/ _ \
+   \ V / (_| | |  | | (_| | | | | |_\__ \ || (_) | | |  __/
+    \_/ \__,_|_|  |_|\__,_|_| |_|\__|___/\__\___/|_|  \___|
diff --git a/src/main/resources/static/css/main.css b/src/main/resources/static/css/main.css
new file mode 100644
index 0000000..9131db8
--- /dev/null
+++ b/src/main/resources/static/css/main.css
@@ -0,0 +1,18 @@
+body {
+  padding-top: 5rem;
+}
+
+td{
+    text-align:center;
+    align-items:center;
+    justify-content:center;
+}
+
+.starter-template {
+  padding: 3rem 1.5rem;
+  text-align: center;
+}
+
+h2{
+	color:#FF0000;
+}
diff --git a/src/main/resources/views/home.html b/src/main/resources/views/home.html
new file mode 100644
index 0000000..a75c702
--- /dev/null
+++ b/src/main/resources/views/home.html
@@ -0,0 +1,87 @@
+<!DOCTYPE HTML>
+<html lang="en" xmlns:th="http://www.thymeleaf.org" xmlns:color="http://www.w3.org/1999/xhtml">
+<head>
+    <title>Variantstore Status</title>
+
+    <link rel="shortcut icon" href="#" />
+
+    <link rel="stylesheet" th:href="@{https://cdnjs.cloudflare.com/ajax/libs/font-awesome/6.1.1/css/all.min.css}" >
+    <link rel="stylesheet" th:href="@{/webjars/bootstrap/5.1.3/css/bootstrap.min.css}"/>
+    <link rel="stylesheet" th:href="@{/css/main.css}"/>
+</head>
+<body>
+
+<nav class="navbar navbar-expand-md navbar-dark bg-dark fixed-top">
+        <a class="navbar-brand">
+            <!-- Logo Image/Icon -->
+            <i class="fas fa-store"> </i>
+            <!-- Logo Text -->
+            <span class="text-uppercase font-weight-bold">Variantstore</span>
+        </a>
+</nav>
+
+    <main role="main" class="container">
+
+        <div class="starter-template">
+            <h1>Current status</h1>
+            <div th:if="${status}" eq 'UP'>
+            <i class="fas fa-circle-check fa-xl" style="color:#28a745"> </i>
+            </div>
+            <div th:unless="${status}" eq 'DOWN'>
+            <i class="fas fa-circle-xmark fa-xl" style="color:#ff0000"> </i>
+            </div>
+        </div>
+
+        <table style="text-align: center; vertical-align: middle; width: 100%">
+            <thead>
+            <tr style="text-align: center; vertical-align: middle; width: 100%">
+            <th></th>
+                <th>status</th>
+                <th>details</th>
+            </tr>
+            </thead>
+            <tbody>
+            <tr>
+                <td style="text-align: left"> <i class="fas fa-gear"> </i> service</td>
+
+                <div th:if="${service}" eq 'UP'>
+                    <td> <i class="fas fa-circle-check" style="color:#28a745"> </i> </td>
+                </div>
+                <div th:unless="${service}" eq 'DOWN'>
+                    <td> <i class="fas fa-circle-xmark" style="color:#ff0000"> </i> </td>
+                </div>
+
+                <td th:text="${'name: ' + servicedetails}"></td>
+            </tr>
+            <tr>
+                <td style="text-align: left"><i class="fas fa-database"> </i> database</td>
+
+                <div th:if="${dbstatus}" eq 'UP'>
+                <td> <i class="fas fa-circle-check" style="color:#28a745"> </i> </td>
+                </div>
+                <div th:unless="${dbstatus}" eq 'DOWN'>
+                <td> <i class="fas fa-circle-xmark" style="color:#ff0000"> </i> </td>
+                </div>
+
+                <td th:text="${dbdetailsDb + ' ' + dbdetailsVersion + ':  ' + dbdetails}"></td>
+            </tr>
+            <tr >
+                <td style="text-align: left"><i class="fas fa-hard-drive"> </i> disk space</td>
+
+                <div th:if="${diskstatus}" eq 'UP'>
+                <td> <i class="fas fa-circle-check" style="color:#28a745"> </i> </td>
+                </div>
+                <div th:unless="${diskstatus}" eq 'DOWN'>
+                <td> <i class="fas fa-circle-xmark" style="color:#ff0000"> </i> </td>
+                </div>
+
+                <td th:text="${'total: ' + diskdetailsTotal + ' Mb  free: ' + diskdetailsFree + ' Mb  threshold: ' + diskdetailsThreshold + ' Mb'}"></td>
+            </tr>
+            </tbody>
+        </table>
+
+    </main>
+
+<script type="text/javascript" th:src="@{/webjars/bootstrap/5.1.3/js/bootstrap.min.js}"></script>
+</body>
+</html>
diff --git a/src/main/resources/views/layoutFile.html b/src/main/resources/views/layoutFile.html
new file mode 100644
index 0000000..073b6aa
--- /dev/null
+++ b/src/main/resources/views/layoutFile.html
@@ -0,0 +1,15 @@
+<!DOCTYPE html>
+<html th:fragment="layout (title, content)" xmlns:th="http://www.thymeleaf.org">
+<head>
+    <title th:replace="${title}">Layout Title</title>
+</head>
+<body>
+<h1>Layout H1</h1>
+<div th:replace="${content}">
+    <p>Layout content</p>
+</div>
+<footer>
+    Layout footer
+</footer>
+</body>
+</html>
diff --git a/src/test/groovy/life/qbic/controller/BeaconControllerSpec.groovy b/src/test/groovy/life/qbic/controller/BeaconControllerSpec.groovy
index f36e855..b7075d3 100644
--- a/src/test/groovy/life/qbic/controller/BeaconControllerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/BeaconControllerSpec.groovy
@@ -3,18 +3,19 @@ package life.qbic.controller
 import io.micronaut.context.ApplicationContext
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 import life.qbic.variantstore.controller.BeaconController
 import life.qbic.variantstore.model.BeaconAlleleResponse
+import spock.lang.Specification
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class BeaconControllerSpec extends TestContainerSpecification{
+class BeaconControllerSpec extends Specification {
 
     @Inject
     ApplicationContext applicationContext
@@ -24,7 +25,7 @@ class BeaconControllerSpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
 
 
     void "verify BeaconController bean exists"() {
@@ -40,8 +41,7 @@ class BeaconControllerSpec extends TestContainerSpecification{
         when:
         def chr = 12
         def uri = "/beacon/query?assemblyId=GRCh37&chromosome=${chr}&startPosition=46601390&reference=C&observed=G"
-        HttpResponse response = httpClient.toBlocking().exchange(uri, BeaconAlleleResponse)
-
+        HttpResponse response = httpClient.toBlocking().exchange(uri, BeaconAlleleResponse.class)
         then:
         response.status == HttpStatus.OK
         response.body.get().exists
@@ -68,4 +68,4 @@ class BeaconControllerSpec extends TestContainerSpecification{
         HttpClientResponseException t = thrown(HttpClientResponseException)
         t.getStatus().code == 400
     }
-}
\ No newline at end of file
+}
diff --git a/src/test/groovy/life/qbic/controller/CaseControllerSpec.groovy b/src/test/groovy/life/qbic/controller/CaseControllerSpec.groovy
index 35fd6b0..a2704c8 100644
--- a/src/test/groovy/life/qbic/controller/CaseControllerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/CaseControllerSpec.groovy
@@ -3,18 +3,19 @@ package life.qbic.controller
 import io.micronaut.context.ApplicationContext
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 import life.qbic.variantstore.controller.CaseController
+import spock.lang.Specification
 import spock.lang.Unroll
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class CaseControllerSpec extends TestContainerSpecification{
+class CaseControllerSpec extends Specification{
 
     @Inject
     ApplicationContext applicationContext
@@ -24,7 +25,7 @@ class CaseControllerSpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
 
     def "verify CaseController bean exists"() {
         given:
@@ -80,9 +81,18 @@ class CaseControllerSpec extends TestContainerSpecification{
 
         where:
         chr | size
-        1   |   0
         4   |   2
         15  |   1
         "X" |   2
     }
-}
\ No newline at end of file
+
+    @Unroll
+    void "should return NOT_FOUND when no case available after filtering for chromosome"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/cases?chromosome=1", List)
+
+        then:
+        HttpClientResponseException t = thrown(HttpClientResponseException)
+        t.getStatus().code == 404
+    }
+}
diff --git a/src/test/groovy/life/qbic/controller/DatabaseSpec.groovy b/src/test/groovy/life/qbic/controller/DatabaseSpec.groovy
deleted file mode 100644
index 6bd4831..0000000
--- a/src/test/groovy/life/qbic/controller/DatabaseSpec.groovy
+++ /dev/null
@@ -1,23 +0,0 @@
-package life.qbic.controller
-
-import io.micronaut.test.annotation.MicronautTest
-import life.qbic.micronaututils.QBiCDataSource
-import life.qbic.variantstore.service.VariantstoreStorage
-import javax.inject.Inject
-
-@MicronautTest(transactional = false)
-class DatabaseSpec extends TestContainerSpecification {
-
-    @Inject
-    VariantstoreStorage storage
-
-    def "confirm that storage connection is alive"() {
-        when:
-        QBiCDataSource dataSource = storage.dataSource
-
-        then:
-        dataSource
-        dataSource.connection
-    }
-}
-
diff --git a/src/test/groovy/life/qbic/controller/GeneControllerSpec.groovy b/src/test/groovy/life/qbic/controller/GeneControllerSpec.groovy
index b82956b..2023c53 100644
--- a/src/test/groovy/life/qbic/controller/GeneControllerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/GeneControllerSpec.groovy
@@ -3,18 +3,20 @@ package life.qbic.controller
 import io.micronaut.context.ApplicationContext
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.HttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 import life.qbic.variantstore.controller.GeneController
+import spock.lang.Specification
 import spock.lang.Unroll
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class GeneControllerSpec extends TestContainerSpecification{
+class GeneControllerSpec extends Specification{
+
     @Inject
     ApplicationContext applicationContext
 
@@ -23,7 +25,8 @@ class GeneControllerSpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    HttpClient httpClient
+    Rx3HttpClient httpClient
+
 
     def "verify GeneController bean exists"() {
         given:
@@ -39,7 +42,7 @@ class GeneControllerSpec extends TestContainerSpecification{
 
         then:
         response.status == HttpStatus.OK
-        response.body().size() == 96
+        response.body().size() == 16
     }
 
     @Unroll
@@ -56,15 +59,15 @@ class GeneControllerSpec extends TestContainerSpecification{
         "ENSG00000150471"   ||  HttpStatus.OK
     }
 
+
     @Unroll
     void "should return Http 404 for given gene identifier if not available "() {
         when:
         def identifier = "ENSG00000150499"
-        httpClient.toBlocking().exchange("/genes/${identifier}", HttpResponse)
+        HttpResponse response = httpClient.toBlocking().exchange("/genes/${identifier}")
 
         then:
-        HttpClientResponseException t = thrown(HttpClientResponseException)
-        t.getStatus().code == 404
+        HttpClientResponseException e = thrown(HttpClientResponseException)
+        e.status == HttpStatus.NOT_FOUND
     }
-
-}
\ No newline at end of file
+}
diff --git a/src/test/groovy/life/qbic/controller/ProjectControllerSpec.groovy b/src/test/groovy/life/qbic/controller/ProjectControllerSpec.groovy
new file mode 100644
index 0000000..188566d
--- /dev/null
+++ b/src/test/groovy/life/qbic/controller/ProjectControllerSpec.groovy
@@ -0,0 +1,70 @@
+package life.qbic.controller
+
+import io.micronaut.context.ApplicationContext
+import io.micronaut.http.HttpResponse
+import io.micronaut.http.HttpStatus
+import io.micronaut.http.client.annotation.Client
+import io.micronaut.http.client.exceptions.HttpClientResponseException
+import io.micronaut.runtime.server.EmbeddedServer
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.controller.ProjectController
+import spock.lang.Specification
+import spock.lang.Unroll
+
+@MicronautTest(transactional = false)
+class ProjectControllerSpec extends Specification{
+
+    @Inject
+    ApplicationContext applicationContext
+
+    @Inject
+    EmbeddedServer embeddedServer
+
+    @Inject
+    @Client('/')
+    Rx3HttpClient httpClient
+
+    def "verify ProjectController bean exists"() {
+        given:
+        applicationContext
+
+        expect:
+        applicationContext.containsBean(ProjectController)
+    }
+
+    @Unroll
+    void "should be reachable and return one project"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/projects", List)
+
+        then:
+        response.status == HttpStatus.OK
+        response.body().size() == 1
+    }
+
+    @Unroll
+    void "should return Http 200 for given case identifier if available "() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/projects/${identifier}")
+
+        then:
+        response.status == status
+
+        where:
+        identifier || status
+        "PROJ"   ||   HttpStatus.OK
+    }
+
+    @Unroll
+    void "should return Http 404 for given case identifier if not available "() {
+        when:
+        def identifier = "PROJ2"
+        httpClient.toBlocking().exchange("/projects/${identifier}", HttpResponse)
+
+        then:
+        HttpClientResponseException t = thrown(HttpClientResponseException)
+        t.getStatus().code == 404
+    }
+}
diff --git a/src/test/groovy/life/qbic/controller/PropertyValueSpec.groovy b/src/test/groovy/life/qbic/controller/PropertyValueSpec.groovy
index 16646a8..a5ff247 100644
--- a/src/test/groovy/life/qbic/controller/PropertyValueSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/PropertyValueSpec.groovy
@@ -1,12 +1,12 @@
 package life.qbic.controller
 
 import io.micronaut.context.ApplicationContext
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class PropertyValueSpec extends TestContainerSpecification{
+class PropertyValueSpec {
     @Inject
     ApplicationContext applicationContext
 
diff --git a/src/test/groovy/life/qbic/controller/SampleControllerSpec.groovy b/src/test/groovy/life/qbic/controller/SampleControllerSpec.groovy
index e08c243..10a8f77 100644
--- a/src/test/groovy/life/qbic/controller/SampleControllerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/SampleControllerSpec.groovy
@@ -3,18 +3,20 @@ package life.qbic.controller
 import io.micronaut.context.ApplicationContext
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 import life.qbic.variantstore.controller.SampleController
+import life.qbic.variantstore.model.Sample
+import spock.lang.Specification
 import spock.lang.Unroll
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class SampleControllerSpec extends TestContainerSpecification {
+class SampleControllerSpec extends Specification {
 
     @Inject
     ApplicationContext applicationContext
@@ -24,7 +26,7 @@ class SampleControllerSpec extends TestContainerSpecification {
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
 
     def "verify SampleController bean exists"() {
         given:
@@ -52,11 +54,26 @@ class SampleControllerSpec extends TestContainerSpecification {
         response.status == status
 
         where:
-        identifier || status
+        identifier   || status
         "QTEST001AL" || HttpStatus.OK
         "QTEST002AT" || HttpStatus.OK
     }
 
+    @Unroll
+    void "should return sample based on specified cancer entity"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/samples?cancerEntity=${cancerEntity}", List<Sample>)
+
+        then:
+        Sample sample = response.body.get()[0]
+        sample.identifier == identifier
+
+        where:
+        cancerEntity   || identifier
+        "HCC" || "QTEST001AL"
+        "ALL" || "QTEST003A3"
+    }
+
     void "should return Http 404 for given samples identifier if not available "() {
         when:
         def identifier = "QTEST001XX"
diff --git a/src/test/groovy/life/qbic/controller/SecuritySpec.groovy b/src/test/groovy/life/qbic/controller/SecuritySpec.groovy
index 4a0acb7..c8c3c93 100644
--- a/src/test/groovy/life/qbic/controller/SecuritySpec.groovy
+++ b/src/test/groovy/life/qbic/controller/SecuritySpec.groovy
@@ -4,19 +4,20 @@ import io.micronaut.context.annotation.Property
 import io.micronaut.http.HttpRequest
 import io.micronaut.http.HttpStatus
 import io.micronaut.context.ApplicationContext
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import spock.lang.Specification
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
 @Property(name= "micronaut.server.port", value = "-1")
 @Property(name= "micronaut.security.enabled", value = "true")
 @Property(name= "micronaut.security.oauth2.enabled", value = "false")
-class SecuritySpec extends TestContainerSpecification{
+class SecuritySpec extends Specification{
 
     @Inject
     ApplicationContext applicationContext
@@ -26,7 +27,7 @@ class SecuritySpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
 
     def "cases is secured"() {
         when:
diff --git a/src/test/groovy/life/qbic/controller/SwaggerSpec.groovy b/src/test/groovy/life/qbic/controller/SwaggerSpec.groovy
index 730b624..90ed3f0 100644
--- a/src/test/groovy/life/qbic/controller/SwaggerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/SwaggerSpec.groovy
@@ -5,16 +5,17 @@ import io.micronaut.context.annotation.Property
 import io.micronaut.http.HttpRequest
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import spock.lang.Specification
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
 @Property(name= "micronaut.server.port", value = "-1")
-class SwaggerSpec extends TestContainerSpecification{
+class SwaggerSpec extends Specification{
 
     @Inject
     ApplicationContext applicationContext
@@ -24,11 +25,11 @@ class SwaggerSpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
 
     def "swagger YAML is exposed"() {
         when:
-        HttpResponse response = httpClient.toBlocking().exchange(HttpRequest.GET("/swagger/variantstore-1.0.1.yml"))
+        HttpResponse response = httpClient.toBlocking().exchange(HttpRequest.GET("/swagger/variantstore-1.1.0.yml"))
 
         then:
         response.status() == HttpStatus.OK
diff --git a/src/test/groovy/life/qbic/controller/TestContainerSpecification.groovy b/src/test/groovy/life/qbic/controller/TestContainerSpecification.groovy
deleted file mode 100644
index 37f7872..0000000
--- a/src/test/groovy/life/qbic/controller/TestContainerSpecification.groovy
+++ /dev/null
@@ -1,37 +0,0 @@
-package life.qbic.controller
-
-import io.micronaut.test.support.TestPropertyProvider
-import org.testcontainers.containers.MariaDBContainer
-import spock.lang.Specification
-
-abstract class TestContainerSpecification extends Specification implements TestPropertyProvider{
-
-    static MariaDBContainer<?> mariaDBContainer = new MariaDBContainer<>("mariadb:10.4")
-            .withInitScript('variantstore_test_db.sql')
-            .withDatabaseName('oncostore')
-            .withUsername('root')
-            .withPassword('')
-            .withReuse(true)
-            .withNetwork(null)
-
-
-    static {
-        mariaDBContainer
-                .start()
-    }
-
-    @Override
-    Map<String, String> getProperties() {
-        def properties = ["datasources.default.url": mariaDBContainer.jdbcUrl,
-                          "datasources.default.driverClassName": mariaDBContainer.driverClassName,
-                          "datasources.default.username": mariaDBContainer.username,
-                          "datasources.default.password": mariaDBContainer.password,
-
-                          "datasources.transactions.url": mariaDBContainer.jdbcUrl,
-                          "datasources.transactions.driverClassName": mariaDBContainer.driverClassName,
-                          "datasources.transactions.username": mariaDBContainer.username,
-                          "datasources.transactions.password": mariaDBContainer.password
-        ]
-        return properties
-    }
-}
\ No newline at end of file
diff --git a/src/test/groovy/life/qbic/controller/VariantControllerSpec.groovy b/src/test/groovy/life/qbic/controller/VariantControllerSpec.groovy
index 807fa33..76320f3 100644
--- a/src/test/groovy/life/qbic/controller/VariantControllerSpec.groovy
+++ b/src/test/groovy/life/qbic/controller/VariantControllerSpec.groovy
@@ -3,18 +3,19 @@ package life.qbic.controller
 import io.micronaut.context.ApplicationContext
 import io.micronaut.http.HttpResponse
 import io.micronaut.http.HttpStatus
-import io.micronaut.http.client.RxHttpClient
 import io.micronaut.http.client.annotation.Client
 import io.micronaut.http.client.exceptions.HttpClientResponseException
 import io.micronaut.runtime.server.EmbeddedServer
-import io.micronaut.test.annotation.MicronautTest
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
 import life.qbic.variantstore.controller.VariantController
+import spock.lang.Specification
 import spock.lang.Unroll
 
-import javax.inject.Inject
 
 @MicronautTest(transactional = false)
-class VariantControllerSpec extends TestContainerSpecification{
+class VariantControllerSpec extends Specification{
 
     @Inject
     private ApplicationContext applicationContext
@@ -24,7 +25,8 @@ class VariantControllerSpec extends TestContainerSpecification{
 
     @Inject
     @Client('/')
-    RxHttpClient httpClient
+    Rx3HttpClient httpClient
+
 
     def "verify VariantController bean exists"() {
         given:
@@ -43,31 +45,131 @@ class VariantControllerSpec extends TestContainerSpecification{
         response.body().size() == 14
     }
 
-    /*
+
+    void "should return variants based on start position"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
+
+        then:
+        response.status == status
+        response.body().size() == resultSize
+
+        where:
+        query || status || resultSize
+        "startPosition=166006829" || HttpStatus.OK || 1
+        "startPosition=166006829&withVcf=true" || HttpStatus.OK || 1
+        "startPosition=166006829&withGenotypes=true&withConsequences=true" || HttpStatus.OK || 1
+    }
+
+
+    void "should return variants based on specified chromosome and start position"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
+
+        then:
+        response.status == status
+        response.body().size() == resultSize
+
+        where:
+        query || status || resultSize
+        "chromosome=4&startPosition=166006829" || HttpStatus.OK || 1
+        "chromosome=4&startPosition=166006829&withVcf=true" || HttpStatus.OK || 1
+        "chromosome=4&startPosition=166006829&withGenotypes=true&withConsequences=true" || HttpStatus.OK || 1
+    }
+
     @Unroll
-    void "should return Http 200 for given variant identifier if available "() {
+    void "should return variants based on sample identifier #query"() {
         when:
-        HttpResponse response = client.toBlocking().exchange("/variants/${identifier}")
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
 
         then:
         response.status == status
+        response.body().size() == resultSize
 
         where:
-        identifier || status
-        "04e1e278-3f46-45cc-9a50-458f76b73513"   ||   HttpStatus.OK
-        "2f8fdbe9-12ec-4b98-9ce7-db2b6dfac780"   ||  HttpStatus.OK
+        query || status || resultSize
+        "sampleId=QTEST001AL" || HttpStatus.OK || 5
+        "sampleId=QTEST001AL&withVcf=true" || HttpStatus.OK || 5
+        "sampleId=QTEST001AL&withConsequences=true" || HttpStatus.OK || 5
+        "sampleId=QTEST001AL&withConsequences=true&withVcf=true" || HttpStatus.OK || 5
+        "sampleId=QTEST001AL&withGenotypes=true&withConsequences=true" || HttpStatus.OK || 5
+    }
+
+
+    void "should return variants based on gene name"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
+
+        then:
+        response.status == status
+        response.body().size() == resultSize
+
+        where:
+        query || status || resultSize
+        "gene=LAMA3" || HttpStatus.OK || 1
+        "gene=LAMA3&withVcf=true" || HttpStatus.OK || 1
+        "gene=LAMA3&withConsequences=true" || HttpStatus.OK || 1
+        "gene=LAMA3&withConsequences=true&withVcf=true" || HttpStatus.OK || 1
+        "gene=LAMA3&withConsequences=true&withGenotypes=true" || HttpStatus.OK || 1
+    }
+
+
+    void "should return variants based on gene identifier"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
+
+        then:
+        response.status == status
+        response.body().size() == resultSize
+
+        where:
+        query || status || resultSize
+        "geneId=ENSG00000115602" || HttpStatus.OK || 1
+        "geneId=ENSG00000115602&withVcf=true" || HttpStatus.OK || 1
+        "geneId=ENSG00000115602&withConsequences=true" || HttpStatus.OK || 1
+        "geneId=ENSG00000115602&withConsequences=true&withVcf=true" || HttpStatus.OK || 1
+        "geneId=ENSG00000115602&withConsequences=true&withGenotypes=true" || HttpStatus.OK || 1
     }
 
-*/
 
     @Unroll
+    void "should return variants based on sample identifier and gene identifier #query"() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants?${query}", List)
+
+        then:
+        response.status == status
+        response.body().size() == resultSize
+
+        where:
+        query || status || resultSize
+        "sampleId=QTEST001AL&geneId=ENSG00000053747" || HttpStatus.OK || 1
+        "sampleId=QTEST001AL&geneId=ENSG00000053747&withVcf=true" || HttpStatus.OK || 1
+        "sampleId=QTEST001AL&geneId=ENSG00000053747&withConsequences=true" || HttpStatus.OK || 1
+        "sampleId=QTEST001AL&geneId=ENSG00000053747&withConsequences=true&withVcf=true" || HttpStatus.OK || 1
+        "sampleId=QTEST001AL&geneId=ENSG00000053747&withGenotypes=true&withConsequences=true" || HttpStatus.OK || 1
+    }
+
+    void "should return Http 200 for given variant identifier if available "() {
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange("/variants/${identifier}")
+
+        then:
+        response.status == status
+
+        where:
+        identifier || status
+        "e741f1f2-2c39-4d00-b311-5bf4cf896005"   ||  HttpStatus.OK
+        "d0b9a24d-e95a-44a2-8279-e895772f97cf"   ||  HttpStatus.OK
+    }
+
     void "should return Http 404 for given variant identifier if not available "() {
         when:
         def identifier = "2f8fdbe9-12ec-4b98-9ce7-db2b6dfac789"
-        httpClient.toBlocking().exchange("/variants/${identifier}", HttpResponse)
+        HttpResponse response = httpClient.toBlocking().exchange("/variants/${identifier}")
 
         then:
-        HttpClientResponseException t = thrown(HttpClientResponseException)
-        t.getStatus() == HttpStatus.NOT_FOUND
+        def e = thrown(HttpClientResponseException)
+        e.status == HttpStatus.NOT_FOUND
     }
-}
\ No newline at end of file
+}
diff --git a/src/test/groovy/life/qbic/db/mariadb/MariaDbDatabaseSpec.groovy b/src/test/groovy/life/qbic/db/mariadb/MariaDbDatabaseSpec.groovy
new file mode 100644
index 0000000..02fefbe
--- /dev/null
+++ b/src/test/groovy/life/qbic/db/mariadb/MariaDbDatabaseSpec.groovy
@@ -0,0 +1,21 @@
+package life.qbic.db.mariadb
+
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.service.VariantstoreStorage
+import spock.lang.Specification
+
+@MicronautTest(transactional = false)
+class MariaDbDatabaseSpec extends Specification {
+
+    @Inject
+    VariantstoreStorage storage
+
+    def "confirm that storage connection is alive"() {
+        when:
+        storage.dataSource
+
+        then:
+        storage.dataSource.connection
+    }
+}
diff --git a/src/test/groovy/life/qbic/db/postgres/ImportVariantsToPostgresqlSpec.groovy b/src/test/groovy/life/qbic/db/postgres/ImportVariantsToPostgresqlSpec.groovy
new file mode 100644
index 0000000..2cb51e6
--- /dev/null
+++ b/src/test/groovy/life/qbic/db/postgres/ImportVariantsToPostgresqlSpec.groovy
@@ -0,0 +1,155 @@
+package life.qbic.db.postgres
+
+import io.micronaut.runtime.EmbeddedApplication
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.database.*
+import life.qbic.variantstore.model.*
+import life.qbic.variantstore.parser.MetadataContext
+import life.qbic.variantstore.parser.MetadataReader
+import life.qbic.variantstore.parser.SimpleVCFReader
+import life.qbic.variantstore.repositories.CaseRepository
+import life.qbic.variantstore.repositories.ConsequenceRepository
+import life.qbic.variantstore.repositories.GeneRepository
+import life.qbic.variantstore.repositories.GenotypeRepository
+import life.qbic.variantstore.repositories.ProjectRepository
+import life.qbic.variantstore.repositories.ReferenceGenomeRepository
+import life.qbic.variantstore.repositories.SampleRepository
+import life.qbic.variantstore.repositories.SampleVariantRepository
+import life.qbic.variantstore.repositories.VariantAnnotationRepository
+import life.qbic.variantstore.repositories.VariantCallerRepository
+import life.qbic.variantstore.repositories.VariantRepository
+import life.qbic.variantstore.repositories.VcfinfoRepository
+import life.qbic.variantstore.util.AnnotationHandler
+import life.qbic.variantstore.util.VcfConstants
+import spock.lang.Specification
+
+
+@MicronautTest(transactional = false)
+class ImportVariantsToPostgresqlSpec extends Specification {
+
+    @Inject EmbeddedApplication<?> application
+    @Inject ProjectRepository projectRepository
+    @Inject CaseRepository caseRepository
+    @Inject ConsequenceRepository consequenceRepository
+    @Inject SampleRepository sampleRepository
+    @Inject VariantRepository variantRepository
+    @Inject ReferenceGenomeRepository referenceGenomeRepository
+    @Inject SampleVariantRepository sampleVariantRepository
+    @Inject VcfinfoRepository vcfInfoRepository
+    @Inject GeneRepository geneRepository
+    @Inject GenotypeRepository genotypeRepository
+    @Inject VariantCallerRepository variantCallerRepository
+    @Inject VariantAnnotationRepository variantAnnotationRepository
+    @Inject PostgresSqlVariantstoreStorage storage
+
+    HashMap determineGenotypeMapping(SimpleVariantContext variant, MetadataContext meta) {
+        // get sample identifiers provided in VCF file and compare them with the samples provided in metadata JSON
+        def genotypesIdentifiers = new ArrayList<String>(variant.genotypes.size())
+        def sampleGenotypeMapping = [:]
+
+        variant.genotypes.each { genotype ->
+            if (genotype.sampleName) genotypesIdentifiers.add(genotype.sampleName)
+        }
+
+        if (genotypesIdentifiers.isEmpty()) {
+            meta.samples.each { sample ->
+                sampleGenotypeMapping.put(sample.identifier, sample)
+            }
+        } else {
+            assert genotypesIdentifiers.size() == meta.samples.size()
+            // in case of one identifier, the mapping is straightforward
+            if (genotypesIdentifiers.size() == 1) {
+                sampleGenotypeMapping[genotypesIdentifiers.get(0)] = meta.samples
+                        .get(0)
+            } else {
+                meta.samples.each { sample ->
+                    def searchIndex = genotypesIdentifiers.indexOf(sample.identifier)
+                    if (searchIndex > -1) {
+                        sampleGenotypeMapping[genotypesIdentifiers[searchIndex]] = sample
+                    } else {
+                        if (sample.cancerEntity && genotypesIdentifiers.findIndexOf { VcfConstants.TUMOR } > -1) {
+                            sampleGenotypeMapping[VcfConstants.NORMAL] = sample
+                        } else if (!sample.cancerEntity && genotypesIdentifiers.findIndexOf { VcfConstants.NORMAL } > -1) {
+                            sampleGenotypeMapping[VcfConstants.TUMOR] = sample
+                        }
+                    }
+                }
+            }
+        }
+        genotypesIdentifiers.clear()
+        return sampleGenotypeMapping
+    }
+
+    void "should import variants from VCF file with metadata and duplicates should be handled properly"() {
+        when:
+        def metadata = '{"project": {"identifier": "QTEST"}, "case": {"identifier": "do1234"}, "variant_annotation": {"version": "bioconda::4.3.1t", "name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": "true", "samples": [{"identifier": "S123456", "cancerEntity": "HCC"}, {"identifier": "S341", "cancerEntity": ""}], "reference_genome": {"source": "GATK", "version": "unknown", "build": "hg38"}, "variant_calling": {"version": "bioconda::2.9.10", "name": "Strelka", "doi": "10.1038/s41592-018-0051-x"}}'
+
+        MetadataReader meta = new MetadataReader(metadata)
+        MetadataContext metadataContext = meta.getMetadataContext()
+
+        def projectsAvailable = projectRepository.findAll().size()
+        def casesAvailable = caseRepository.findAll().size()
+        def samplesAvailable = sampleRepository.findAll().size()
+        def variantAvailable =  variantRepository.findAll().size()
+        def refGenomeAvailable = referenceGenomeRepository.findAll().size()
+        def variantCallerAvailable = variantCallerRepository.findAll().size()
+        def variantAnnotationAvailable = variantAnnotationRepository.findAll().size()
+        def consequenceAvailable = consequenceRepository.findAll().size()
+        def geneAvailable = geneRepository.findAll().size()
+        def sampleVariantAvailable = sampleVariantRepository.findAll().size()
+
+        String path = "src/test/resources/data/Strelka_somatic_indels_snpEff.ann.vcf"
+        File file = new File(path)
+
+        Annotation annotationSoftware =  metadataContext.getVariantAnnotation()
+        AnnotationHandler.AnnotationTools annotationTool = annotationSoftware.getName().toUpperCase()  as AnnotationHandler.AnnotationTools
+        SimpleVCFReader reader = new SimpleVCFReader(file.newInputStream(), annotationTool.getTag())
+
+        SimpleVariantContext variant = null
+        HashMap<String, Sample> sampleGenotypeMapping = new HashMap<String, Sample>()
+        def idx = 0
+
+        ArrayList<SimpleVariantContext> variantsToInsert = null
+
+        while (reader.iterator().hasNext()) {
+            variant = (Variant) reader.iterator().next()
+
+            AnnotationHandler.addAnnotationsToVariant(variant, annotationSoftware)
+            variant.setIdentifier(UUID.randomUUID().toString())
+            variant.setSomatic(metadataContext.getIsSomatic())
+
+            if (idx == 0) {
+                sampleGenotypeMapping = determineGenotypeMapping(variant, metadataContext)
+            }
+
+            if ((variant.referenceAllele.length() > 255) || (variant.observedAllele.length() > 255)) {
+                def warning = new StringBuilder("Skipping variant").append(variant.startPosition).append(":")
+                        .append(variant.referenceAllele).append(">").append(" because the reference or observed " + "allele is exceeding the maximum length\"")
+            } else {
+                if (variantsToInsert == null) variantsToInsert = new ArrayList<>(250000)
+                variantsToInsert.add(variant)
+                idx += 1
+            }
+        }
+
+        storage.storeVariantsInStoreWithMetadata(metadataContext, sampleGenotypeMapping, variantsToInsert)
+        storage.storeVariantsInStoreWithMetadata(metadataContext, sampleGenotypeMapping, variantsToInsert)
+
+        def availableConsequences = []
+        variantsToInsert.each {availableConsequences.addAll(it.consequences.flatten())}
+        def numberConsequences = availableConsequences.size()
+
+        then:
+        projectRepository.list().size() == projectsAvailable + 1
+        caseRepository.list().size() == casesAvailable + 1
+        sampleRepository.findAll().size() == samplesAvailable + metadataContext.samples.size()
+        variantRepository.list().size() == variantAvailable + variantsToInsert.size()
+        referenceGenomeRepository.list().size() == refGenomeAvailable + 1
+        variantCallerRepository.list().size() == variantCallerAvailable + 1
+        variantAnnotationRepository.findAll().size() == variantAnnotationAvailable + 1
+        consequenceRepository.list().size() == consequenceAvailable + numberConsequences
+        geneRepository.findAll().size() > geneAvailable
+        sampleVariantRepository.findAll().size() == sampleVariantAvailable + 4
+    }
+}
diff --git a/src/test/groovy/life/qbic/db/postgres/PostgresqlDatabaseSpec.groovy b/src/test/groovy/life/qbic/db/postgres/PostgresqlDatabaseSpec.groovy
new file mode 100644
index 0000000..e9ce4a2
--- /dev/null
+++ b/src/test/groovy/life/qbic/db/postgres/PostgresqlDatabaseSpec.groovy
@@ -0,0 +1,25 @@
+package life.qbic.db.postgres
+
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.service.VariantstoreStorage
+import spock.lang.Specification
+
+
+@MicronautTest(transactional = false)
+class PostgresqlDatabaseSpec extends Specification {
+
+    @Inject
+    VariantstoreStorage storage
+
+    def "confirm that storage connection is alive"() {
+        when:
+        storage
+
+        then:
+        storage.projectRepository
+        storage.caseRepository
+        storage.sampleRepository
+        storage.variantRepository
+    }
+}
diff --git a/src/test/groovy/life/qbic/db/postgres/RepositorySpec.groovy b/src/test/groovy/life/qbic/db/postgres/RepositorySpec.groovy
new file mode 100644
index 0000000..46766da
--- /dev/null
+++ b/src/test/groovy/life/qbic/db/postgres/RepositorySpec.groovy
@@ -0,0 +1,228 @@
+package life.qbic.db.postgres
+
+import io.micronaut.runtime.EmbeddedApplication
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.database.PostgresSqlVariantstoreStorage
+import life.qbic.variantstore.factories.SampleFactory
+import life.qbic.variantstore.repositories.CaseRepository
+import life.qbic.variantstore.repositories.ConsequenceRepository
+import life.qbic.variantstore.repositories.EnsemblRepository
+import life.qbic.variantstore.repositories.GeneRepository
+import life.qbic.variantstore.repositories.GenotypeRepository
+import life.qbic.variantstore.repositories.ProjectRepository
+import life.qbic.variantstore.repositories.ReferenceGenomeRepository
+import life.qbic.variantstore.repositories.SampleRepository
+import life.qbic.variantstore.repositories.SampleVariantRepository
+import life.qbic.variantstore.repositories.VariantAnnotationRepository
+import life.qbic.variantstore.repositories.VariantCallerRepository
+import life.qbic.variantstore.repositories.VariantRepository
+import life.qbic.variantstore.repositories.VcfinfoRepository
+import life.qbic.variantstore.model.Annotation
+import life.qbic.variantstore.model.Case
+import life.qbic.variantstore.model.Consequence
+import life.qbic.variantstore.model.Ensembl
+import life.qbic.variantstore.model.Gene
+import life.qbic.variantstore.model.Genotype
+import life.qbic.variantstore.model.Project
+import life.qbic.variantstore.model.ReferenceGenome
+import life.qbic.variantstore.model.Sample
+import life.qbic.variantstore.model.SampleVariant
+import life.qbic.variantstore.model.Variant
+import life.qbic.variantstore.model.VariantCaller
+import life.qbic.variantstore.model.VcfInfo
+import life.qbic.variantstore.factories.GeneFactory
+import life.qbic.variantstore.factories.GenotypeFactory
+import life.qbic.variantstore.factories.VariantFactory
+import life.qbic.variantstore.factories.VcfInfoFactory
+import spock.lang.Specification
+
+
+@MicronautTest(transactional = false)
+class RepositorySpec extends Specification {
+
+    @Inject
+    EmbeddedApplication<?> application
+
+    @Inject
+    CaseRepository caseRepository
+
+    @Inject
+    ConsequenceRepository consequenceRepository
+
+    @Inject
+    EnsemblRepository ensemblRepository
+
+    @Inject
+    GeneRepository geneRepository
+
+    @Inject
+    GenotypeRepository genotypeRepository
+
+    @Inject
+    ProjectRepository projectRepository
+
+    @Inject
+    ReferenceGenomeRepository referenceGenomeRepository
+
+    @Inject
+    SampleRepository sampleRepository
+
+    @Inject
+    SampleVariantRepository sampleVariantRepository
+
+    @Inject
+    VariantAnnotationRepository variantAnnotationRepository
+
+    @Inject
+    VariantCallerRepository variantCallerRepository
+
+    @Inject
+    VariantRepository variantRepository
+
+    @Inject
+    VcfinfoRepository vcfinfoRepository
+
+    @Inject
+    PostgresSqlVariantstoreStorage postgresSqlVariantstoreStorage
+
+    void 'test application is running'() {
+        expect:
+        application.running
+    }
+
+    void 'test insert works for project and case'() {
+        when:
+        Project project = new Project()
+        project.setIdentifier("QTEST2")
+        Case entity = new Case()
+        entity.setIdentifier("QENTITY2")
+        projectRepository.save(project)
+        entity.setProject(project)
+
+        def entityInserted = caseRepository.save(entity)
+        def found = caseRepository.findById(entityInserted.id).get()
+        then:
+        found.id == entity.id
+    }
+
+    void 'test insert works for consequence'() {
+        when:
+        Consequence consequence = new Consequence()
+        def consequenceInserted = consequenceRepository.save(consequence)
+        def found = consequenceRepository.findById(consequenceInserted.id).get()
+        then:
+        found.id
+    }
+
+    void 'test insert works for ensembl'() {
+        when:
+        Ensembl ensembl = new Ensembl(1, "01/2021")
+        def ensemblInserted = ensemblRepository.save(ensembl)
+        def found = ensemblRepository.findById(ensemblInserted.id).get()
+        then:
+        found.version == ensembl.version
+    }
+
+    void 'test insert works for gene'() {
+        when:
+        Gene newGene = new GeneFactory().createGene()
+        Gene geneInserted = geneRepository.save(newGene)
+        Gene found = geneRepository.findById(geneInserted.id).get()
+        then:
+        found.geneId == newGene.geneId
+    }
+
+    void 'test insert works for genotype'() {
+        when:
+        def newGenotype = new GenotypeFactory().createGenotype()
+        def genotypeInserted = genotypeRepository.save(newGenotype)
+        def found = genotypeRepository.findById(genotypeInserted.id).get()
+        then:
+        found.readDepth == newGenotype.readDepth
+    }
+
+    void 'test insert works for project'() {
+        when:
+        Project project = new Project()
+        project.setIdentifier("QTEST")
+        def projectInserted = projectRepository.save(project)
+        def found = projectRepository.findById(projectInserted.id).get()
+        then:
+        found.id == project.id
+    }
+
+    void 'test insert works for reference genome'() {
+        when:
+        ReferenceGenome referenceGenome = new ReferenceGenome("unknown", "2t", "1.0")
+        def refInserted = referenceGenomeRepository.save(referenceGenome)
+        def found = referenceGenomeRepository.findById(refInserted.id).get()
+        then:
+        found.id == refInserted.id
+    }
+
+    void 'test insert works for sample'() {
+        when:
+        Sample sample = new SampleFactory().createSample()
+        def sampleInserted = sampleRepository.save(sample)
+        def found = sampleRepository.findById(sampleInserted.id).get()
+        then:
+        found.identifier == sample.identifier
+    }
+
+    void 'test insert works for sample variant'() {
+        when:
+        Sample sample = new SampleFactory().createSample()
+        Variant variant = new VariantFactory().createVariant()
+        VcfInfo vcfInfo = new VcfInfoFactory().createVcfInfo()
+        Genotype genotype = new GenotypeFactory().createGenotype()
+
+        def sampleInserted = sampleRepository.save(sample)
+        def variantInserted = variantRepository.save(variant)
+        def vcfInfoInserted = vcfinfoRepository.save(vcfInfo)
+        def genotypeInserted = genotypeRepository.save(genotype)
+
+        SampleVariant sampleVariant = new SampleVariant(sampleInserted, variantInserted, vcfInfoInserted, genotypeInserted)
+        def sampleVariantInserted = sampleVariantRepository.save(sampleVariant)
+        def foundVariant = variantRepository.findById(variantInserted.id).get()
+        then:
+        sampleVariantInserted.variant.id == foundVariant.id
+    }
+
+    void 'test insert works for variant annotation software'() {
+        when:
+        Annotation annotation = new Annotation("a software", "1.0", "doi1234")
+        def annotationInserted = variantAnnotationRepository.save(annotation)
+        def found = variantAnnotationRepository.findById(annotationInserted.id).get()
+        then:
+        found.doi == annotation.doi
+    }
+
+    void 'test insert works for variant calling software'() {
+        when:
+        VariantCaller variantCaller = new VariantCaller("a software", "1.0", "doi1234")
+        def variantCallerInserted = variantCallerRepository.save(variantCaller)
+        def found = variantCallerRepository.findById(variantCallerInserted.id).get()
+        then:
+        found.doi == variantCaller.doi
+    }
+
+    void 'test insert works for variant'() {
+        when:
+        Variant newVariant = new VariantFactory().createVariant()
+        def variantInserted = variantRepository.save(newVariant)
+        def found = variantRepository.findById(variantInserted.id).get()
+        then:
+        found.chromosome == newVariant.chromosome
+    }
+
+    void 'test insert works for vcf info'() {
+        when:
+
+        VcfInfo newVcfInfo = new VcfInfoFactory().createVcfInfo()
+        def vcfInfoInserted = vcfinfoRepository.save(newVcfInfo)
+        def found = vcfinfoRepository.findById(vcfInfoInserted.id).get()
+        then:
+        found.combinedDepth == newVcfInfo.combinedDepth
+    }
+}
diff --git a/src/test/groovy/life/qbic/processing/GeneImportSpec.groovy b/src/test/groovy/life/qbic/processing/GeneImportSpec.groovy
new file mode 100644
index 0000000..7933e79
--- /dev/null
+++ b/src/test/groovy/life/qbic/processing/GeneImportSpec.groovy
@@ -0,0 +1,56 @@
+package life.qbic.processing
+
+import io.micronaut.context.ApplicationContext
+import io.micronaut.context.annotation.Property
+import io.micronaut.http.HttpRequest
+import io.micronaut.http.HttpResponse
+import io.micronaut.http.HttpStatus
+import io.micronaut.http.MediaType
+import io.micronaut.http.client.annotation.Client
+import io.micronaut.http.client.multipart.MultipartBody
+import io.micronaut.runtime.server.EmbeddedServer
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.model.Gene
+import spock.lang.Specification
+import spock.util.concurrent.PollingConditions
+
+@MicronautTest(transactional = false)
+@Property(name= "micronaut.server.multipart.max-file-size", value = "10MB")
+@Property(name= "micronaut.server.max-request-size", value = "20MB")
+@Property(name= "micronaut.server.netty.max-initial-line-length", value = "3000000")
+class GeneImportSpec extends Specification{
+
+    @Inject
+    ApplicationContext applicationContext
+
+    @Inject
+    EmbeddedServer embeddedServer
+
+    @Inject
+    @Client('/')
+    Rx3HttpClient httpClient
+
+    void "should import genes and metadata from gff3 file to the variantstore"() {
+        when:
+        def requestBody = MultipartBody.builder()
+                .addPart("files", new File("${file}"))
+                .build()
+
+        HttpRequest request = HttpRequest.POST("/genes", requestBody)
+                .accept(MediaType.APPLICATION_JSON)
+                .contentType(MediaType.MULTIPART_FORM_DATA)
+        HttpResponse response = httpClient.toBlocking().exchange(request)
+
+        then:
+        response.status() == status
+        HttpRequest geneRequest = HttpRequest.GET('/genes/ENSG00000215567')
+        HttpResponse geneResponse = httpClient.toBlocking().exchange(geneRequest, Set<Gene>.class)
+        geneResponse.status() == HttpStatus.OK
+
+        where:
+        file || status
+        "src/test/resources/data/Homo_sapiens.GRCh38.87.chromosome.15.gff3"  || HttpStatus.OK
+    }
+}
diff --git a/src/test/groovy/life/qbic/processing/VariantImportSpec.groovy b/src/test/groovy/life/qbic/processing/VariantImportSpec.groovy
new file mode 100644
index 0000000..857c302
--- /dev/null
+++ b/src/test/groovy/life/qbic/processing/VariantImportSpec.groovy
@@ -0,0 +1,80 @@
+package life.qbic.processing
+
+import io.micronaut.context.ApplicationContext
+import io.micronaut.context.annotation.Property
+import io.micronaut.http.HttpHeaders
+import io.micronaut.http.HttpRequest
+import io.micronaut.http.HttpResponse
+import io.micronaut.http.HttpStatus
+import io.micronaut.http.MediaType
+import io.micronaut.http.client.annotation.Client
+import io.micronaut.http.client.multipart.MultipartBody
+import io.micronaut.runtime.server.EmbeddedServer
+import io.micronaut.rxjava3.http.client.Rx3HttpClient
+import io.micronaut.test.extensions.spock.annotation.MicronautTest
+import jakarta.inject.Inject
+import life.qbic.variantstore.model.TransactionStatus
+import life.qbic.variantstore.model.Status
+import spock.lang.Shared
+import spock.lang.Specification
+import spock.lang.Unroll
+import spock.util.concurrent.PollingConditions
+
+
+@MicronautTest(transactional = false)
+@Property(name= "micronaut.server.multipart.max-file-size", value = "10MB")
+@Property(name= "micronaut.server.max-request-size", value = "20MB")
+@Property(name= "micronaut.server.netty.max-initial-line-length", value = "3000000")
+class VariantImportSpec extends Specification {
+
+    @Inject
+    ApplicationContext applicationContext
+
+    @Inject
+    EmbeddedServer embeddedServer
+
+    @Inject
+    @Client('/')
+    Rx3HttpClient httpClient
+
+    @Shared String metadata1 = '{"project": {"identifier": "project1"}, "case": {"identifier": "patient1"}, ' +
+            '"variant_annotation": {"version": "4.3t","name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": true, ' +
+            '"sample": {"identifier": "QTEST001AL","cancerEntity": "HCC"}, "reference_genome": ' +
+            '{"source": "Ensembl", "version": "17", "build": "GRCh37"},"variant_calling": {"version": "2.0", "name": "Strelka", "doi": "10.1038/s41592-018-0051-x"}}'
+    @Shared String metadata2 = '{"project": {"identifier": "project1"}, "case": {"identifier": "patient2"}, "variant_annotation": {"version": "4.3t", "name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": true, "sample": {"identifier": "QTEST002AT", ' +
+    '"cancerEntity": "HCC"}, "reference_genome": {"source": "Ensembl", "version": "17", "build": ' +
+    '"GRCh37"}, "variant_calling": {"version": "2.0", "name": "Strelka", "doi": "10' + '.1038/s41592-018-0051-x"}}'
+    @Shared String metadata3 = '{"project": {"identifier": "project2"}, "case": {"identifier": "patient3"}, "variant_annotation": {"version": "4.3t", "name": "snpeff", "doi": "10.4161/fly.19695"}, "is_somatic": true, "sample": {"identifier": "QTEST003A3", ' +
+    '"cancerEntity": "ALL"}, "reference_genome": {"source": "Ensembl", "version": "17", "build": ' +
+    '"GRCh37"}, "variant_calling": {"version": "2.0", "name": "Strelka", "doi": "10' + '.1038/s41592-018-0051-x"}}'
+
+    @Unroll
+    void "should import variants and metadata to the variantstore"() {
+
+        given:
+        def requestBody = MultipartBody.builder()
+                .addPart("metadata", "${metadata}")
+                .addPart("files", new File("${file}"))
+                .build()
+        HttpRequest request = HttpRequest.POST("/variants", requestBody)
+                .accept(MediaType.APPLICATION_JSON)
+                .contentType(MediaType.MULTIPART_FORM_DATA)
+        PollingConditions uploaded = new PollingConditions(delay: 2, initialDelay: 1, timeout: 180)
+
+        when:
+        HttpResponse response = httpClient.toBlocking().exchange(request)
+
+        then:
+        uploaded.eventually {
+            HttpRequest transactionRequest = HttpRequest.GET(response.header(HttpHeaders.LOCATION))
+            HttpResponse transactionResponse = httpClient.toBlocking().exchange(transactionRequest, TransactionStatus.class)
+            String transactionStatus = transactionResponse.body().status
+            transactionStatus == Status.finished.toString()
+            response.status() == status
+        }
+
+        where:
+        metadata || file || status
+        metadata1 || "src/test/resources/data/patient1_ann.vcf"  || HttpStatus.ACCEPTED
+    }
+}
diff --git a/src/test/resources/application-test-mariadb.yml b/src/test/resources/application-test-mariadb.yml
new file mode 100644
index 0000000..b7e7a56
--- /dev/null
+++ b/src/test/resources/application-test-mariadb.yml
@@ -0,0 +1,65 @@
+micronaut:
+    application:
+        name: variantstore
+    server:
+        port: -1
+        thread-selection: AUTO
+    security:
+        enabled: false
+        intercept-url-map:
+            - pattern: /swagger/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+            - pattern: /swagger-ui/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+            - pattern: /rapidoc/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+        endpoints:
+            login:
+                enabled: true
+            logout:
+                enabled: true
+                get-allowed: true
+            oauth:
+                enabled: true
+        session:
+            enabled: true
+        token:
+            jwt:
+                enabled: true
+        oauth2:
+            enabled: false
+datasources:
+    variantstore_mariadb:
+        url: jdbc:tc:mariadb:///test/variantstore?user=root?password=?
+        #url: jdbc:tc:mariadb:///oncostore?user=root?password=?
+        driverClassName: org.testcontainers.jdbc.ContainerDatabaseDriver
+    transactions_mariadb:
+        url: jdbc:tc:mariadb:///test/transactions?user=root?password=?
+        #url: jdbc:tc:mariadb:///oncostore/transactions?user=root?password=?
+        driverClassName: org.testcontainers.jdbc.ContainerDatabaseDriver
+database:
+    specifier: variantstore-mariadb
+flyway:
+    datasources:
+        variantstore_postgres:
+            enabled: false
+            baselineOnMigrate: true
+            locations: classpath:db/postgresql
+        transactions:
+            enabled: false
+            baselineOnMigrate: true
+            locations: classpath:db/transactions
+        variantstore_mariadb:
+            enabled: true
+            baselineOnMigrate: true
+            locations: classpath:db-test/mariadb
+        transactions_mariadb:
+            enabled: true
+            baselineOnMigrate: true
+            locations: classpath:db-test/transactions_mariadb
diff --git a/src/test/resources/application-test-postgres.yml b/src/test/resources/application-test-postgres.yml
new file mode 100644
index 0000000..e780824
--- /dev/null
+++ b/src/test/resources/application-test-postgres.yml
@@ -0,0 +1,63 @@
+micronaut:
+    application:
+        name: variantstore
+    server:
+        port: -1
+        thread-selection: AUTO
+    security:
+        enabled: false
+        intercept-url-map:
+            - pattern: /swagger/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+            - pattern: /swagger-ui/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+            - pattern: /rapidoc/*
+              http-method: GET
+              access:
+                  - isAnonymous()
+        endpoints:
+            login:
+                enabled: true
+            logout:
+                enabled: true
+                get-allowed: true
+            oauth:
+                enabled: true
+        session:
+            enabled: true
+        token:
+            jwt:
+                enabled: true
+        oauth2:
+            enabled: false
+datasources:
+    variantstore_postgres:
+        url: jdbc:tc:postgresql:13:///postgres?currentSchema=variantstore
+        driverClassName: org.testcontainers.jdbc.ContainerDatabaseDriver
+    transactions:
+        url: jdbc:tc:postgresql:13:///postgres?currentSchema=transactions
+        driverClassName: org.testcontainers.jdbc.ContainerDatabaseDriver
+database:
+    specifier: variantstore-postgres
+flyway:
+    datasources:
+        variantstore_postgres:
+            enabled: true
+            baselineOnMigrate: true
+            locations: classpath:db-test/postgresql
+        transactions:
+            enabled: true
+            baselineOnMigrate: true
+            locations: classpath:db-test/transactions
+        variantstore_mariadb:
+            enabled: false
+            baselineOnMigrate: true
+            locations: classpath:db-test/mariadb
+        transactions_mariadb:
+            enabled: false
+            baselineOnMigrate: true
+            locations: classpath:db-test/transactions_mariadb
diff --git a/src/test/resources/application-test.yml b/src/test/resources/application-test.yml
deleted file mode 100644
index 0995926..0000000
--- a/src/test/resources/application-test.yml
+++ /dev/null
@@ -1,38 +0,0 @@
-micronaut:
-    application:
-        name: variantstore
-    server:
-        port: -1
-    security:
-        enabled: false
-        intercept-url-map:
-            - pattern: /swagger/*
-              http-method: GET
-              access:
-                  - isAnonymous()
-            - pattern: /swagger-ui/*
-              http-method: GET
-              access:
-                  - isAnonymous()
-            - pattern: /rapidoc/*
-              http-method: GET
-              access:
-                  - isAnonymous()
-        endpoints:
-            login:
-                enabled: true
-            logout:
-                enabled: true
-                get-allowed: true
-            oauth:
-                enabled: true
-        session:
-            enabled: true
-        token:
-            jwt:
-                enabled: true
-        oauth2:
-            enabled: false
-
-userroles:
-    config: "src/main/resources/test.yml"
\ No newline at end of file
diff --git a/src/test/resources/data/Homo_sapiens.GRCh38.87.chromosome.15.gff3 b/src/test/resources/data/Homo_sapiens.GRCh38.87.chromosome.15.gff3
new file mode 100644
index 0000000..c2cc2cd
--- /dev/null
+++ b/src/test/resources/data/Homo_sapiens.GRCh38.87.chromosome.15.gff3
@@ -0,0 +1,88 @@
+##gff-version   3
+##sequence-region   15 1 101991189
+#!genome-build  GRCh38.p7
+#!genome-version GRCh38
+#!genome-date 2013-12
+#!genome-build-accession NCBI:GCA_000001405.22
+#!genebuild-last-updated 2016-06
+15	GRCh38	chromosome	1	101991189	.	.	.	ID=chromosome:15;Alias=CM000677.2,chr15,NC_000015.10
+###
+15	havana	gene	19878555	19887814	.	+	.	ID=gene:ENSG00000215567;Name=RP11-79C23.1;biotype=unprocessed_pseudogene;gene_id=ENSG00000215567;havana_gene=OTTHUMG00000163698;havana_version=1;logic_name=havana;version=5
+15	havana	pseudogene	19878555	19887814	.	+	.	ID=transcript:ENST00000524329;Parent=gene:ENSG00000215567;Name=RP11-79C23.1-001;biotype=unprocessed_pseudogene;havana_transcript=OTTHUMT00000374791;havana_version=1;tag=basic;transcript_id=ENST00000524329;transcript_support_level=NA;version=1
+15	havana	exon	19878555	19878668	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00002133693;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00002133693;rank=1;version=1
+15	havana	exon	19878831	19879004	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00003544224;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00003544224;rank=2;version=1
+15	havana	exon	19881201	19881307	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00003523105;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00003523105;rank=3;version=1
+15	havana	exon	19882277	19882439	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00002122474;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00002122474;rank=4;version=1
+15	havana	exon	19884979	19885043	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00003610421;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00003610421;rank=5;version=1
+15	havana	exon	19887724	19887814	.	+	.	Parent=transcript:ENST00000524329;Name=ENSE00002098314;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00002098314;rank=6;version=1
+###
+15	ensembl	snRNA_gene	19883614	19883716	.	+	.	ID=gene:ENSG00000201241;Name=RNU6-978P;biotype=snRNA;description=RNA%2C U6 small nuclear 978%2C pseudogene [Source:HGNC Symbol%3BAcc:HGNC:47941];gene_id=ENSG00000201241;logic_name=ncrna;version=1
+15	ensembl	snRNA	19883614	19883716	.	+	.	ID=transcript:ENST00000364371;Parent=gene:ENSG00000201241;Name=RNU6-978P-201;biotype=snRNA;tag=basic;transcript_id=ENST00000364371;transcript_support_level=NA;version=1
+15	ensembl	exon	19883614	19883716	.	+	.	Parent=transcript:ENST00000364371;Name=ENSE00001439134;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00001439134;rank=1;version=1
+###
+15	.	biological_region	19898785	19898891	1	-	.	external_name=rank %3D 1;logic_name=firstef
+15	.	biological_region	19898888	19899448	430	.	.	external_name=oe %3D 0.62;logic_name=cpg
+15	.	biological_region	19898950	19898952	0.999	-	.	logic_name=eponine
+15	.	biological_region	19898981	19898987	0.999	-	.	logic_name=eponine
+15	.	biological_region	19899029	19899031	0.999	-	.	logic_name=eponine
+15	.	biological_region	19899046	19899047	0.999	-	.	logic_name=eponine
+15	.	biological_region	19899111	19899113	0.999	-	.	logic_name=eponine
+15	.	biological_region	19899131	19899137	0.999	-	.	logic_name=eponine
+15	havana	gene	19899334	19899559	.	+	.	ID=gene:ENSG00000258463;Name=RP11-173D3.3;biotype=processed_pseudogene;gene_id=ENSG00000258463;havana_gene=OTTHUMG00000171715;havana_version=1;logic_name=havana;version=1
+15	havana	processed_pseudogene	19899334	19899559	.	+	.	ID=transcript:ENST00000553634;Parent=gene:ENSG00000258463;Name=RP11-173D3.3-001;biotype=processed_pseudogene;havana_transcript=OTTHUMT00000414850;havana_version=1;tag=basic;transcript_id=ENST00000553634;transcript_support_level=NA;version=1
+15	havana	exon	19899334	19899559	.	+	.	Parent=transcript:ENST00000553634;Name=ENSE00002481859;constitutive=1;ensembl_end_phase=-1;ensembl_phase=-1;exon_id=ENSE00002481859;rank=1;version=1
+###
+15	.	biological_region	19899358	19899555	1	+	.	external_name=rank %3D 1;logic_name=firstef
+15	.	biological_region	19943441	19944862	1.82e+03	.	.	external_name=oe %3D 0.78;logic_name=cpg
+15	.	biological_region	19943488	19943489	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943524	19943531	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943555	19943556	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943591	19943595	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943609	19944614	1	-	.	external_name=rank %3D 1;logic_name=firstef
+15	.	biological_region	19943613	19943619	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943639	19943641	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943649	19944614	1	-	.	external_name=rank %3D 2;logic_name=firstef
+15	.	biological_region	19943662	19943666	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943666	19943729	0.999	+	.	external_name=rank %3D 1;logic_name=firstef
+15	.	biological_region	19943727	19943733	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943768	19943770	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943785	19943788	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943800	19943804	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943821	19943829	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943839	19943843	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943858	19943866	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943893	19943902	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943917	19943923	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943958	19943964	0.999	-	.	logic_name=eponine
+15	.	biological_region	19943998	19944004	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944020	19944027	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944044	19944051	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944058	19944058	0.999	+	.	logic_name=eponine
+15	.	biological_region	19944070	19944078	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944093	19944101	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944111	19944119	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944147	19944154	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944164	19944171	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944180	19944186	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944213	19944214	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944229	19944233	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944252	19944259	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944277	19944280	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944288	19944614	1	-	.	external_name=rank %3D 3;logic_name=firstef
+15	.	biological_region	19944293	19944297	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944316	19944319	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944333	19944337	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944357	19944361	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944399	19944404	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944421	19944427	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944438	19944444	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944480	19944485	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944523	19944525	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944547	19944550	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944567	19944571	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944605	19944608	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944629	19944632	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944681	19944686	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944729	19944732	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944751	19944755	0.999	-	.	logic_name=eponine
+15	.	biological_region	19944806	19944809	0.999	-	.	logic_name=eponine
diff --git a/src/test/resources/data/Strelka_somatic_indels_snpEff.ann.vcf b/src/test/resources/data/Strelka_somatic_indels_snpEff.ann.vcf
new file mode 100644
index 0000000..27257c2
--- /dev/null
+++ b/src/test/resources/data/Strelka_somatic_indels_snpEff.ann.vcf
@@ -0,0 +1,11 @@
+##fileformat=VCFv4.1
+##fileDate=20200805
+##source=strelka
+##source_version=2.9.10
+##startTime=Wed Aug  5 13:39:56 2020
+##INFO=<ID=ANN,Number=.,Type=String,Description="Functional annotations: 'Allele | Annotation | Annotation_Impact | Gene_Name | Gene_ID | Feature_Type | Feature_ID | Transcript_BioType | Rank | HGVS.c | HGVS.p | cDNA.pos / cDNA.length | CDS.pos / CDS.length | AA.pos / AA.length | Distance | ERRORS / WARNINGS / INFO' ">
+##INFO=<ID=LOF,Number=.,Type=String,Description="Predicted loss of function effects for this variant. Format: 'Gene_Name | Gene_ID | Number_of_transcripts_in_gene | Percent_of_transcripts_affected'">
+##INFO=<ID=NMD,Number=.,Type=String,Description="Predicted nonsense mediated decay effects for this variant. Format: 'Gene_Name | Gene_ID | Number_of_transcripts_in_gene | Percent_of_transcripts_affected'">
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	NORMAL	TUMOR
+chr1	1935275	.	TG	T	.	PASS	SOMATIC;QSI=27;TQSI=2;NT=ref;QSI_NT=27;TQSI_NT=2;SGT=ref->het;MQ=47.56;MQ0=1;RU=G;RC=3;IC=1;IHP=4;SomaticEVS=8.53;ANN=T|intron_variant|MODIFIER|CFAP74|ENSG00000142609|transcript|ENST00000493964.5|protein_coding|25/37|c.3011+3582_3011+3583delCC||||||	DP:DP2:TAR:TIR:TOR:DP50:FDP50:SUBDP50:BCN50	24:24:23,27:0,0:1,1:22.99:0.10:0.00:0.00	13:13:7,12:3,3:3,3:10.63:0.97:0.00:0.00
+chr12	78416067	.	ATGCGTCAAATTCACGTGGCGTACT	A	.	PASS	SOMATIC;QSI=119;TQSI=1;NT=ref;QSI_NT=119;TQSI_NT=1;SGT=ref->het;MQ=60.00;MQ0=0;RU=ATGCGTCAAATTCACGTGGCGTACT;RC=1;IC=0;IHP=3;SomaticEVS=17.22;ANN=A|intron_variant|MODIFIER|RP11-754N21.1|ENSG00000258084|transcript|ENST00000548963.1|lincRNA|1/5|n.151-7126_151-7100delGTTTGCAAATTCACGTGGCGTACTTGC||||||INFO_REALIGN_3_PRIME	DP:DP2:TAR:TIR:TOR:DP50:FDP50:SUBDP50:BCN50	49:49:60,62:0,0:2,2:47.72:0.10:0.00:0.00	91:91:58,61:37,37:10,8:78.01:0.46:0.00:0.00
diff --git a/src/test/resources/patient1_ann.vcf b/src/test/resources/data/patient1_ann.vcf
similarity index 100%
rename from src/test/resources/patient1_ann.vcf
rename to src/test/resources/data/patient1_ann.vcf
diff --git a/src/test/resources/patient2_ann.vcf b/src/test/resources/data/patient2_ann.vcf
similarity index 100%
rename from src/test/resources/patient2_ann.vcf
rename to src/test/resources/data/patient2_ann.vcf
diff --git a/src/test/resources/patient3_ann.vcf b/src/test/resources/data/patient3_ann.vcf
similarity index 100%
rename from src/test/resources/patient3_ann.vcf
rename to src/test/resources/data/patient3_ann.vcf
diff --git a/src/test/resources/db-test/mariadb/V1__variantstore_test_db.sql b/src/test/resources/db-test/mariadb/V1__variantstore_test_db.sql
new file mode 100644
index 0000000..67e1aef
--- /dev/null
+++ b/src/test/resources/db-test/mariadb/V1__variantstore_test_db.sql
@@ -0,0 +1,1373 @@
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+        'WARNING_TRANSCRIPT_NO_START_CODON'),
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+    CONSTRAINT `fk_Consequence_has_Gene_Gene1` FOREIGN KEY (`gene_id`) REFERENCES `gene` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
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+--
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+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `ensembl_has_gene`
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+    `ensembl_id` int(11) NOT NULL,
+    `gene_id`    int(11) NOT NULL,
+    PRIMARY KEY (`ensembl_id`, `gene_id`),
+    KEY `fk_ensembl_has_gene_gene_idx` (`gene_id`),
+    KEY `fk_ensembl_has_gene_ensembl_idx` (`ensembl_id`),
+    CONSTRAINT `fk_Ensembl_has_Gene_Ensembl1` FOREIGN KEY (`ensembl_id`) REFERENCES `ensembl` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_Ensembl_has_Gene_Gene1` FOREIGN KEY (`gene_id`) REFERENCES `gene` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
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+--
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+LOCK TABLES `ensembl_has_gene` WRITE;
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+/*!40000 ALTER TABLE `ensembl_has_gene`
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+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `entity`
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+    `id`         varchar(15) NOT NULL,
+    `project_id` varchar(15) DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `entity_index` (`id`),
+    KEY `fk_vase_project_idx` (`project_id`),
+    CONSTRAINT `fk_Case_Project1` FOREIGN KEY (`project_id`) REFERENCES `project` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
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+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `gene`
+(
+    `id`          int(11) NOT NULL AUTO_INCREMENT,
+    `symbol`      varchar(25)  DEFAULT NULL,
+    `name`        varchar(255) DEFAULT NULL,
+    `biotype`     varchar(45)  DEFAULT NULL,
+    `chr`         varchar(15)  DEFAULT NULL,
+    `start`       bigint(20)   DEFAULT NULL,
+    `end`         bigint(20)   DEFAULT NULL,
+    `synonyms`    varchar(45)  DEFAULT NULL,
+    `geneid`      varchar(45)  DEFAULT NULL,
+    `description` varchar(255) DEFAULT NULL,
+    `strand`      varchar(1)   DEFAULT NULL,
+    `version`     int(11)      DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `gene_idx` (`symbol`, `name`, `biotype`, `chr`, `start`, `end`, `synonyms`, `geneid`, `description`,
+                           `strand`, `version`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 97
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
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+/*!40000 ALTER TABLE `gene`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `genotype`
+--
+
+DROP TABLE IF EXISTS `genotype`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `genotype`
+(
+    `id`                     int(11) NOT NULL AUTO_INCREMENT,
+    `genotype`               varchar(45) DEFAULT NULL,
+    `readdepth`              int(11)     DEFAULT NULL,
+    `filter`                 varchar(45) DEFAULT NULL,
+    `likelihoods`            varchar(45) DEFAULT NULL,
+    `genotypelikelihoods`    varchar(45) DEFAULT NULL,
+    `genotypelikelihoodshet` varchar(45) DEFAULT NULL,
+    `posteriorprobs`         varchar(45) DEFAULT NULL,
+    `genotypequality`        int(11)     DEFAULT NULL,
+    `haplotypequalities`     varchar(45) DEFAULT NULL,
+    `phaseset`               varchar(45) DEFAULT NULL,
+    `phasingquality`         int(11)     DEFAULT NULL,
+    `alternateallelecounts`  varchar(45) DEFAULT NULL,
+    `mappingquality`         int(11)     DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `genotype_idx` (`genotype`, `readdepth`, `filter`, `likelihoods`, `genotypelikelihoods`,
+                               `genotypelikelihoodshet`, `genotypequality`, `haplotypequalities`, `phaseset`,
+                               `phasingquality`, `alternateallelecounts`, `mappingquality`, `posteriorprobs`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 4
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
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+--
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+LOCK TABLES `genotype` WRITE;
+/*!40000 ALTER TABLE `genotype`
+    DISABLE KEYS */;
+INSERT INTO `genotype`
+VALUES (1, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL),
+       (2, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL),
+       (3, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL);
+/*!40000 ALTER TABLE `genotype`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `project`
+--
+
+DROP TABLE IF EXISTS `project`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `project`
+(
+    `id` varchar(15) NOT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `project_index` (`id`)
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
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+--
+
+LOCK TABLES `project` WRITE;
+/*!40000 ALTER TABLE `project`
+    DISABLE KEYS */;
+INSERT INTO `project`
+VALUES ( 'PROJ');
+/*!40000 ALTER TABLE `project`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+
+--
+-- Table structure for table `referencegenome`
+--
+
+DROP TABLE IF EXISTS `referencegenome`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `referencegenome`
+(
+    `id`      int(11) NOT NULL AUTO_INCREMENT,
+    `source`  varchar(45) DEFAULT NULL,
+    `build`   varchar(45) DEFAULT NULL,
+    `version` varchar(45) DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `rf_idx` (`source`, `build`, `version`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 4
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
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+--
+
+LOCK TABLES `referencegenome` WRITE;
+/*!40000 ALTER TABLE `referencegenome`
+    DISABLE KEYS */;
+INSERT INTO `referencegenome`
+VALUES (1, 'Ensembl', 'GRCh37', '17');
+/*!40000 ALTER TABLE `referencegenome`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `sample`
+--
+
+DROP TABLE IF EXISTS `sample`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `sample`
+(
+    `id`           int(11) NOT NULL AUTO_INCREMENT,
+    `identifier`   varchar(15) DEFAULT NULL,
+    `entity_id`    varchar(15) DEFAULT NULL,
+    `cancerentity` varchar(45) DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `fk_idx` (`identifier`, `entity_id`, `cancerentity`),
+    KEY `fk_sample_case_idx` (`entity_id`),
+    CONSTRAINT `fk_Sample_Case1` FOREIGN KEY (`entity_id`) REFERENCES `entity` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 4
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
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+--
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+LOCK TABLES `sample` WRITE;
+/*!40000 ALTER TABLE `sample`
+    DISABLE KEYS */;
+INSERT INTO `sample`
+VALUES (1, 'QTEST001AL', 'patient1', 'HCC'),
+       (2, 'QTEST002AT', 'patient2', 'HCC'),
+       (3, 'QTEST003A3', 'patient3', 'ALL');
+/*!40000 ALTER TABLE `sample`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `sample_has_variant`
+--
+
+DROP TABLE IF EXISTS `sample_has_variant`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `sample_has_variant`
+(
+    `sample_id`   int(11) NOT NULL,
+    `variant_id`  int(11) NOT NULL,
+    `vcfinfo_id`  int(11) NOT NULL,
+    `genotype_id` int(11) NOT NULL,
+    PRIMARY KEY (`sample_id`, `variant_id`, `vcfinfo_id`, `genotype_id`),
+    UNIQUE KEY `idx_sample_has_variant` (`sample_id`, `variant_id`, `vcfinfo_id`, `genotype_id`),
+    KEY `fk_sample_has_variant_variant_idx` (`variant_id`),
+    KEY `fk_sample_has_variant_vcfinfo1_idx` (`vcfinfo_id`),
+    KEY `fk_sample_has_variant_genotype1_idx` (`genotype_id`),
+    KEY `fk_sample_has_variant_sample1_idx` (`sample_id`),
+    CONSTRAINT `fk_Sample_has_Variant_Variant1` FOREIGN KEY (`variant_id`) REFERENCES `variant` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_sample_has_variant_genotype1` FOREIGN KEY (`genotype_id`) REFERENCES `genotype` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_sample_has_variant_sample1` FOREIGN KEY (`sample_id`) REFERENCES `sample` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_sample_has_variant_vcfinfo1` FOREIGN KEY (`vcfinfo_id`) REFERENCES `vcfinfo` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
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+--
+
+LOCK TABLES `sample_has_variant` WRITE;
+/*!40000 ALTER TABLE `sample_has_variant`
+    DISABLE KEYS */;
+INSERT INTO `sample_has_variant`
+VALUES (1, 1, 1, 1),
+       (1, 2, 2, 1),
+       (1, 3, 3, 1),
+       (1, 4, 4, 1),
+       (1, 5, 5, 1),
+       (2, 4, 4, 1),
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+       (3, 12, 12, 1),
+       (3, 13, 13, 1),
+       (3, 14, 14, 1),
+       (3, 15, 15, 1);
+/*!40000 ALTER TABLE `sample_has_variant`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `variant`
+--
+
+DROP TABLE IF EXISTS `variant`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `variant`
+(
+    `id`                 int(11)     NOT NULL AUTO_INCREMENT,
+    `chr`                varchar(15) NOT NULL,
+    `start`              bigint(20)  NOT NULL,
+    `end`                bigint(20)  NOT NULL,
+    `ref`                tinytext    NOT NULL,
+    `obs`                tinytext    NOT NULL,
+    `issomatic`          tinyint(4)  NOT NULL,
+    `uuid`               varchar(36) NOT NULL,
+    `databaseidentifier` varchar(45) DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `variant_idx` (`chr`, `start`, `end`, `ref`(255), `obs`(255), `issomatic`, `databaseidentifier`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 16
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `variant`
+--
+
+LOCK TABLES `variant` WRITE;
+/*!40000 ALTER TABLE `variant`
+    DISABLE KEYS */;
+INSERT INTO `variant`
+VALUES (1, '15', 33359344, 33359344, 'T', 'C', 1, 'e741f1f2-2c39-4d00-b311-5bf4cf896005', '.'),
+       (2, '12', 46601390, 46601390, 'C', 'G', 1, 'd0b9a24d-e95a-44a2-8279-e895772f97cf', '.'),
+       (3, '9', 114518682, 114518682, 'G', 'T', 1, 'aed9a27b-f9aa-4f8f-911f-81936aef306e', '.'),
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+       (11, '2', 72411294, 72411294, 'C', 'A', 1, '4ad08366-6b4c-4b98-8ea5-24a5637ca417', '.'),
+       (12, '9', 106875723, 106875723, 'C', 'G', 1, '9d9840fe-085d-4bc4-b9f1-a881662616d8', '.'),
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+       (14, '12', 420115, 420115, 'C', 'T', 1, 'a44d09a9-198b-4849-a2ea-06cd004123a6', '.'),
+       (15, '22', 50555597, 50555597, 'G', 'A', 1, 'ca32be21-bae0-46a2-9f7d-5a707256bc75', '.');
+/*!40000 ALTER TABLE `variant`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `variant_has_consequence`
+--
+
+DROP TABLE IF EXISTS `variant_has_consequence`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `variant_has_consequence`
+(
+    `variant_id`     int(11) NOT NULL,
+    `consequence_id` int(11) NOT NULL,
+    PRIMARY KEY (`variant_id`, `consequence_id`),
+    UNIQUE KEY `fk_idx` (`variant_id`, `consequence_id`),
+    KEY `fk_variant_has_consequence_consequence_idx` (`consequence_id`),
+    KEY `fk_variant_has_consequence_variant_idx` (`variant_id`),
+    CONSTRAINT `fk_Variant_has_Consequence_Consequence1` FOREIGN KEY (`consequence_id`) REFERENCES `consequence` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_Variant_has_Consequence_Variant1` FOREIGN KEY (`variant_id`) REFERENCES `variant` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `variant_has_consequence`
+--
+
+LOCK TABLES `variant_has_consequence` WRITE;
+/*!40000 ALTER TABLE `variant_has_consequence`
+    DISABLE KEYS */;
+INSERT INTO `variant_has_consequence`
+VALUES (1, 1),
+       (1, 2),
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+       (9, 53),
+       (9, 54),
+       (9, 55),
+       (9, 56),
+       (9, 57),
+       (9, 58),
+       (9, 59),
+       (9, 60),
+       (9, 61),
+       (9, 62),
+       (9, 63),
+       (9, 64),
+       (9, 65),
+       (9, 66),
+       (9, 67),
+       (9, 68),
+       (9, 69),
+       (11, 71),
+       (11, 72),
+       (11, 73),
+       (11, 74),
+       (12, 75),
+       (12, 76),
+       (12, 77),
+       (12, 78),
+       (12, 79),
+       (12, 80),
+       (13, 81),
+       (13, 82),
+       (13, 83),
+       (13, 84),
+       (13, 85),
+       (14, 86),
+       (14, 87),
+       (14, 88),
+       (14, 89),
+       (14, 90),
+       (15, 91),
+       (15, 92),
+       (15, 93),
+       (15, 94),
+       (15, 95),
+       (15, 96);
+/*!40000 ALTER TABLE `variant_has_consequence`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `variant_has_referencegenome`
+--
+
+DROP TABLE IF EXISTS `variant_has_referencegenome`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `variant_has_referencegenome`
+(
+    `variant_id`         int(11) NOT NULL,
+    `referencegenome_id` int(11) NOT NULL,
+    PRIMARY KEY (`variant_id`, `referencegenome_id`),
+    UNIQUE KEY `fk_idx` (`variant_id`, `referencegenome_id`),
+    KEY `fk_Variant_has_ReferenceGenome_ReferenceGenome1_idx` (`referencegenome_id`),
+    KEY `fk_Variant_has_ReferenceGenome_Variant1_idx` (`variant_id`),
+    CONSTRAINT `fk_Variant_has_ReferenceGenome_ReferenceGenome1` FOREIGN KEY (`referencegenome_id`) REFERENCES `referencegenome` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_Variant_has_ReferenceGenome_Variant1` FOREIGN KEY (`variant_id`) REFERENCES `variant` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `variant_has_referencegenome`
+--
+
+LOCK TABLES `variant_has_referencegenome` WRITE;
+/*!40000 ALTER TABLE `variant_has_referencegenome`
+    DISABLE KEYS */;
+INSERT INTO `variant_has_referencegenome`
+VALUES (1, 1),
+       (2, 1),
+       (3, 1),
+       (4, 1),
+       (5, 1),
+       (6, 1),
+       (7, 1),
+       (8, 1),
+       (9, 1),
+       (11, 1),
+       (12, 1),
+       (13, 1),
+       (14, 1),
+       (15, 1);
+/*!40000 ALTER TABLE `variant_has_referencegenome`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `variant_has_variantcaller`
+--
+
+DROP TABLE IF EXISTS `variant_has_variantcaller`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `variant_has_variantcaller`
+(
+    `variant_id`       int(11) NOT NULL,
+    `variantcaller_id` int(11) NOT NULL,
+    PRIMARY KEY (`variant_id`, `variantcaller_id`),
+    UNIQUE KEY `fk_idx` (`variant_id`, `variantcaller_id`),
+    KEY `fk_variant_has_variantcaller_variantcaller_idx` (`variantcaller_id`),
+    KEY `fk_variant_has_variantcaller_variant_idx` (`variant_id`),
+    CONSTRAINT `fk_Variant_has_VariantCaller_Variant1` FOREIGN KEY (`variant_id`) REFERENCES `variant` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION,
+    CONSTRAINT `fk_Variant_has_VariantCaller_VariantCaller1` FOREIGN KEY (`variantcaller_id`) REFERENCES `variantcaller` (`id`) ON DELETE NO ACTION ON UPDATE NO ACTION
+) ENGINE = InnoDB
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `variant_has_variantcaller`
+--
+
+LOCK TABLES `variant_has_variantcaller` WRITE;
+/*!40000 ALTER TABLE `variant_has_variantcaller`
+    DISABLE KEYS */;
+INSERT INTO `variant_has_variantcaller`
+VALUES (1, 1),
+       (2, 1),
+       (3, 1),
+       (4, 1),
+       (5, 1),
+       (6, 1),
+       (7, 1),
+       (8, 1),
+       (9, 1),
+       (11, 1),
+       (12, 1),
+       (13, 1),
+       (14, 1),
+       (15, 1);
+/*!40000 ALTER TABLE `variant_has_variantcaller`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `variantcaller`
+--
+
+DROP TABLE IF EXISTS `variantcaller`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `variantcaller`
+(
+    `id`      int(11)     NOT NULL AUTO_INCREMENT,
+    `name`    varchar(45) NOT NULL,
+    `version` varchar(15) NOT NULL,
+    `doi`     varchar(30) NOT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `fk_idx` (`name`, `version`, `doi`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 4
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `variantcaller`
+--
+
+LOCK TABLES `variantcaller` WRITE;
+/*!40000 ALTER TABLE `variantcaller`
+    DISABLE KEYS */;
+INSERT INTO `variantcaller`
+VALUES (1, 'Strelka', '2.0', '10.1038/s41592-018-0051-x');
+/*!40000 ALTER TABLE `variantcaller`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+
+--
+-- Table structure for table `vcfinfo`
+--
+
+DROP TABLE IF EXISTS `vcfinfo`;
+/*!40101 SET @saved_cs_client = @@character_set_client */;
+/*!40101 SET character_set_client = utf8 */;
+CREATE TABLE `vcfinfo`
+(
+    `id`              int(11) NOT NULL AUTO_INCREMENT,
+    `ancestralallele` varchar(45) DEFAULT NULL,
+    `allelecount`     varchar(45) DEFAULT NULL,
+    `allelefrequency` varchar(45) DEFAULT NULL,
+    `numberalleles`   int(11)     DEFAULT NULL,
+    `basequality`     int(11)     DEFAULT NULL,
+    `cigar`           varchar(45) DEFAULT NULL,
+    `dbsnp`           tinyint(4)  DEFAULT NULL,
+    `hapmaptwo`       tinyint(4)  DEFAULT NULL,
+    `hapmapthree`     tinyint(4)  DEFAULT NULL,
+    `thousandgenomes` tinyint(4)  DEFAULT NULL,
+    `combineddepth`   int(11)     DEFAULT NULL,
+    `endpos`          int(11)     DEFAULT NULL,
+    `rms`             int(11)     DEFAULT NULL,
+    `mqzero`          int(11)     DEFAULT NULL,
+    `strandbias`      int(11)     DEFAULT NULL,
+    `numbersamples`   int(11)     DEFAULT NULL,
+    `somatic`         tinyint(4)  DEFAULT NULL,
+    `validated`       tinyint(4)  DEFAULT NULL,
+    PRIMARY KEY (`id`),
+    UNIQUE KEY `info_idx` (`ancestralallele`, `allelecount`, `allelefrequency`, `numberalleles`, `basequality`, `cigar`,
+                           `dbsnp`, `hapmaptwo`, `hapmapthree`, `thousandgenomes`, `combineddepth`, `endpos`, `rms`,
+                           `mqzero`, `strandbias`, `numbersamples`, `somatic`, `validated`)
+) ENGINE = InnoDB
+  AUTO_INCREMENT = 16
+  DEFAULT CHARSET = utf8;
+/*!40101 SET character_set_client = @saved_cs_client */;
+
+--
+-- Dumping data for table `vcfinfo`
+--
+
+LOCK TABLES `vcfinfo` WRITE;
+/*!40000 ALTER TABLE `vcfinfo`
+    DISABLE KEYS */;
+INSERT INTO `vcfinfo`
+VALUES (2, 'p.E135K', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (5, 'p.G72S', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (4, 'p.I62I', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (7, 'p.L454L', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (12, 'p.L461V', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (6, 'p.M482T', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (1, 'p.N248H', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (14, 'p.R1051Q', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (13, 'p.R192G', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (15, 'p.R424H', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (3, 'p.S262*', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (9, 'p.T1008A', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (8, 'p.T613T', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0),
+       (11, 'p.W277L', '[]', '[]', -1, -1, '', 0, 0, 0, 0, -1, -1, -1, -1, -1, -1, 0, 0);
+/*!40000 ALTER TABLE `vcfinfo`
+    ENABLE KEYS */;
+UNLOCK TABLES;
+SET FOREIGN_KEY_CHECKS = 1;
+/*!40103 SET TIME_ZONE = @OLD_TIME_ZONE */;
+
+/*!40101 SET SQL_MODE = @OLD_SQL_MODE */;
+/*!40014 SET FOREIGN_KEY_CHECKS = @OLD_FOREIGN_KEY_CHECKS */;
+/*!40014 SET UNIQUE_CHECKS = @OLD_UNIQUE_CHECKS */;
+/*!40101 SET CHARACTER_SET_CLIENT = @OLD_CHARACTER_SET_CLIENT */;
+/*!40101 SET CHARACTER_SET_RESULTS = @OLD_CHARACTER_SET_RESULTS */;
+/*!40101 SET COLLATION_CONNECTION = @OLD_COLLATION_CONNECTION */;
+/*!40111 SET SQL_NOTES = @OLD_SQL_NOTES */;
+
+-- Dump completed on 2020-07-02 11:30:06
diff --git a/src/test/resources/db-test/postgresql/V1__variantstore-postgres_test_db.sql b/src/test/resources/db-test/postgresql/V1__variantstore-postgres_test_db.sql
new file mode 100644
index 0000000..5eec1da
--- /dev/null
+++ b/src/test/resources/db-test/postgresql/V1__variantstore-postgres_test_db.sql
@@ -0,0 +1,1310 @@
+--
+-- PostgreSQL database dump
+--
+
+-- Dumped from database version 13.2
+-- Dumped by pg_dump version 13.2
+
+CREATE SCHEMA IF NOT EXISTS variantstore;
+
+SET SCHEMA 'variantstore';
+
+--
+-- Name: project; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE project (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying NOT NULL
+);
+
+INSERT INTO project(identifier) VALUES ('PROJ') RETURNING id;
+
+--
+-- Name: annotationsoftware; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+INSERT INTO annotationsoftware(name, version, doi) VALUES ('snpeff','4.3t','10.4161/fly.19695');
+
+--
+-- Name: annotationsoftware_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE annotationsoftware_consequence (
+    consequence_id bigint NOT NULL,
+    annotationsoftware_id bigint NOT NULL
+);
+
+INSERT INTO annotationsoftware_consequence(consequence_id, annotationsoftware_id)
+VALUES (1, 1),
+       (2, 1),
+       (3, 1),
+       (4, 1),
+       (5, 1),
+       (6, 1),
+       (7, 1),
+       (8, 1),
+       (9, 1),
+       (10, 1),
+       (11, 1),
+       (12, 1),
+       (13, 1),
+       (14, 1),
+       (15, 1),
+       (16, 1),
+       (17, 1),
+       (18, 1),
+       (19, 1),
+       (20, 1),
+       (21, 1),
+       (22, 1),
+       (23, 1),
+       (24, 1),
+       (25, 1),
+       (26, 1),
+       (27, 1),
+       (28, 1),
+       (29, 1),
+       (30, 1),
+       (31, 1),
+       (32, 1),
+       (33, 1),
+       (34, 1),
+       (35, 1),
+       (36, 1),
+       (37, 1),
+       (38, 1),
+       (39, 1),
+       (40, 1),
+       (41, 1),
+       (42, 1),
+       (43, 1),
+       (44, 1),
+       (45, 1),
+       (46, 1),
+       (47, 1),
+       (48, 1),
+       (49, 1),
+       (50, 1),
+       (51, 1),
+       (52, 1),
+       (53, 1),
+       (54, 1),
+       (55, 1),
+       (56, 1),
+       (57, 1),
+       (58, 1),
+       (59, 1),
+       (60, 1),
+       (61, 1),
+       (62, 1),
+       (63, 1),
+       (64, 1),
+       (65, 1),
+       (66, 1),
+       (67, 1),
+       (68, 1),
+       (69, 1),
+       (71, 1),
+       (72, 1),
+       (73, 1),
+       (74, 1),
+       (75, 1),
+       (76, 1),
+       (77, 1),
+       (78, 1),
+       (79, 1),
+       (80, 1),
+       (81, 1),
+       (82, 1),
+       (83, 1),
+       (84, 1),
+       (85, 1),
+       (86, 1),
+       (87, 1),
+       (88, 1),
+       (89, 1),
+       (90, 1),
+       (91, 1),
+       (92, 1),
+       (93, 1),
+       (94, 1),
+       (95, 1);
+
+--
+-- Name: consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE consequence (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    allele character varying,
+    codingchange character varying,
+    transcriptid character varying,
+    transcriptversion integer,
+    type character varying,
+    biotype character varying,
+    canonical boolean,
+    aachange character varying,
+    cdnaposition character varying,
+    cdsposition character varying,
+    proteinposition character varying,
+    proteinlength integer,
+    cdnalength integer,
+    cdslength integer,
+    impact character varying,
+    exon character varying,
+    intron character varying,
+    strand integer,
+    genesymbol character varying,
+    featuretype character varying,
+    distance integer,
+    warnings character varying
+);
+
+INSERT INTO consequence(allele, codingchange, transcriptid, transcriptversion, type, biotype, canonical, aachange,
+                        cdnaposition, cdsposition, proteinposition, proteinlength, cdnalength, cdslength, impact, exon,
+                        intron, strand, genesymbol, featuretype, distance, warnings) VALUES
+                        ('G','c.742A>C','ENST00000334528',-1,'missense_variant','protein_coding',false,'p.Asn248His','742','742','248',1196,12355,3591,'MODERATE','1/17','',0,'FMN1','transcript',-1,''),
+                        ('G','c.742A>C','ENST00000558197',-1,'missense_variant','protein_coding',false,'p.Asn248His','1020','742','248',503,4060,1512,'MODERATE','1/2','',0,'FMN1','transcript',-1,''),
+                        ('G','c.2044-2069A>C','ENST00000559047',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'FMN1','region_of_interest:Mediates_interaction_with_alpha-catenin',-1,''),
+                        ('G','c.2044-2069A>C','ENST00000559047',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','2/17','',0,'FMN1','transcript',-1,''),
+                        ('G','c.1868-59068A>C','ENST00000561249',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','1/15','',0,'FMN1','transcript',-1,''),
+                        ('G','n.239+651A>C','ENST00000559150',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','1/1','',0,'FMN1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000552197',-1,'missense_variant','protein_coding',false,'p.Glu135Lys','1088','403','135',503,2599,1512,'MODERATE','7/17','',0,'SLC38A1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000398637',-1,'missense_variant','protein_coding',false,'p.Glu135Lys','1098','403','135',487,8066,1464,'MODERATE','7/17','',0,'SLC38A1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000549049',-1,'missense_variant','protein_coding',false,'p.Glu135Lys','966','403','135',487,3196,1464,'MODERATE','6/16','',0,'SLC38A1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000439706',-1,'missense_variant','protein_coding',false,'p.Glu135Lys','1206','403','135',487,3436,1464,'MODERATE','8/18','',0,'SLC38A1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000546893',-1,'missense_variant','protein_coding',false,'p.Glu135Lys','866','403','135',487,2332,1464,'MODERATE','7/17','',0,'SLC38A1','transcript',-1,''),
+                        ('T','c.403G>A','ENST00000546893',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'SLC38A1','topological_domain:Cytoplasmic',-1,''),
+                        ('T','n.460G>A','ENST00000549633',-1,'non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','5/12','',0,'SLC38A1','transcript',-1,''),
+                        ('T','n.562G>A','ENST00000551506',-1,'non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','5/5','',0,'SLC38A1','transcript',-1,''),
+                        ('C','c.593C>G','ENST00000318737',-1,'stop_gained','protein_coding',false,'p.Ser198*','722','593','198',1444,4661,4335,'HIGH','6/26','',0,'C9orf84','transcript',-1,''),
+                        ('C','c.476C>G','ENST00000394777',-1,'stop_gained','protein_coding',false,'p.Ser159*','721','476','159',1370,4955,4113,'HIGH','4/23','',0,'C9orf84','transcript',-1,''),
+                        ('C','c.476C>G','ENST00000394779',-1,'stop_gained','protein_coding',false,'p.Ser159*','721','476','159',1405,5060,4218,'HIGH','4/24','',0,'C9orf84','transcript',-1,''),
+                        ('C','c.593C>G','ENST00000374287',-1,'stop_gained','protein_coding',false,'p.Ser198*','854','593','198',1444,4847,4335,'HIGH','8/28','',0,'C9orf84','transcript',-1,''),
+                        ('C','c.785C>G','ENST00000374283',-1,'stop_gained','protein_coding',false,'p.Ser262*','930','785','262',488,1973,1467,'HIGH','8/12','',0,'C9orf84','transcript',-1,''),
+                        ('A','c.186G>C','ENST00000369454',-1,'synonymous_variant','protein_coding',false,'p.Ile62Ile','487','186','62',213,3505,642,'LOW','1/2','',0,'RAB39B','transcript',-1,''),
+                        ('A','c.214G>C','ENST00000313654',-1,'missense_variant','protein_coding',false,'p.Gly72Ser','455','214','72',3333,10661,10002,'MODERATE','1/75','',0,'LAMA3','transcript',-1,''),
+                        ('A','c.214G>A','ENST00000399516',-1,'missense_variant','protein_coding',false,'p.Gly72Ser','214','214','72',3277,9834,9834,'MODERATE','1/74','',0,'LAMA3','transcript',-1,''),
+                        ('A','c.214G>A','ENST00000313654',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'LAMA3','domain:Laminin_N-terminal',-1,''),
+                        ('A','c.214G>A','ENST00000399516',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'LAMA3','domain:Laminin_N-terminal',-1,''),
+                        ('A','n.214G>A','ENST00000585600',-1,'non_coding_exon_variant','non_stop_decay',false,'','','','',-1,-1,-1,'MODIFIER','1/13','',0,'LAMA3','transcript',-1,''),
+                        ('C','c.1445T>C','ENST00000233954',-1,'missense_variant','protein_coding',false,'p.Met482Thr','1716','1445','482',556,2058,1671,'MODERATE','11/11','',0,'IL1RL1','transcript',-1,''),
+                        ('C','c.1445T>C','ENST00000233954',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'IL1RL1','topological_domain:Cytoplasmic',-1,''),
+                        ('C','c.1445T>C','ENST00000233954',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'IL1RL1','domain:TIR',-1,''),
+                        ('C','c.-10966T>C','ENST00000409599',-1,'upstream_gene_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','','',0,'IL18R1','transcript',4234,''),
+                        ('C','n.-4350T>C','ENST00000466357',-1,'upstream_gene_variant','retained_intron',false,'','','','',-1,-1,-1,'MODIFIER','','',0,'IL18R1','transcript',4350,''),
+                        ('C','c.-28-10938T>C','ENST00000410040',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','1/10','',0,'IL18R1','transcript',-1,''),
+                        ('A','c.1362G>A','ENST00000299440',-1,'synonymous_variant','protein_coding',false,'p.Leu454Leu','1474','1362','454',1043,6564,3132,'LOW','2/2','',0,'RAG1','transcript',-1,''),
+                        ('A','c.1362G>A','ENST00000299440',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'RAG1','DNA-binding_region:NBD',-1,''),
+                        ('A','n.*908C>T','ENST00000524423',-1,'downstream_gene_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','','',0,'RAG2','transcript',908,''),
+                        ('A','n.1362G>A','ENST00000534663',-1,'non_coding_exon_variant','nonsense_mediated_decay',false,'','','','',-1,-1,-1,'MODIFIER','8/10','',0,'RAG1','transcript',-1,''),
+                        ('T','c.1944G>T','ENST00000534015',-1,'splice_region_variant&synonymous_variant','protein_coding',false,'p.Pro648Pro','1945','1944','648',805,2787,2418,'LOW','15/20','',0,'NCAM1','transcript',-1,'WARNING_TRANSCRIPT_NO_START_CODON'),
+                        ('T','c.1839G>T','ENST00000401611',-1,'splice_region_variant&synonymous_variant','protein_coding',false,'p.Thr613Thr','1839','1839','613',664,1995,1995,'LOW','16/18','',0,'NCAM1','transcript',-1,'WARNING_TRANSCRIPT_NO_START_CODON'),
+                        ('T','n.447G>T','ENST00000526322',-1,'splice_region_variant&non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'LOW','6/10','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.342G>T','ENST00000531817',-1,'splice_region_variant&non_coding_exon_variant','nonsense_mediated_decay',false,'','','','',-1,-1,-1,'LOW','5/11','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.323G>T','ENST00000528590',-1,'splice_region_variant&non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'LOW','4/10','',0,'NCAM1','transcript',-1,''),
+                        ('T','c.1973-5581G>T','ENST00000524665',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','13/18','',0,'NCAM1','transcript',-1,'WARNING_TRANSCRIPT_NO_START_CODON'),
+                        ('T','n.2242-5581G>T','ENST00000531915',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','15/20','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.2040+5623G>T','ENST00000527506',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','13/15','',0,'NCAM1','transcript',-1,''),
+                        ('T','c.1442-5581G>T','ENST00000533760',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','13/16','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.2037-5581G>T','ENST00000397957',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','14/19','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.231-15090G>T','ENST00000526427',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','1/3','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.2265-5581G>T','ENST00000531044',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','13/19','',0,'NCAM1','transcript',-1,''),
+                        ('T','c.1795+5623G>T','ENST00000316851',-1,'intron_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','13/17','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.508+4472G>T','ENST00000530543',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','5/6','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.323+5623G>T','ENST00000533073',-1,'intron_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','3/7','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.192+5623G>T','ENST00000525355',-1,'intron_variant','retained_intron',false,'','','','',-1,-1,-1,'MODIFIER','2/3','',0,'NCAM1','transcript',-1,''),
+                        ('T','n.281G>T','ENST00000525691',-1,'non_coding_exon_variant','retained_intron',false,'','','','',-1,-1,-1,'MODIFIER','1/4','',0,'NCAM1','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000506720',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3226','3226','1076',1580,4962,4743,'MODERATE','17/25','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000512091',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3769','3022','1008',1240,12636,3723,'MODERATE','18/26','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000514591',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3351','3022','1008',1469,6297,4410,'MODERATE','18/25','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000506700',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3195','3022','1008',1231,4838,3696,'MODERATE','16/23','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000509896',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3399','3226','1076',1308,5069,3927,'MODERATE','17/25','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000511324',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3399','3226','1076',1299,5042,3900,'MODERATE','17/24','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000545650',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3195','3022','1008',1469,6124,4410,'MODERATE','16/23','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000507164',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3355','3226','1076',1342,4982,4029,'MODERATE','17/25','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000508693',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3355','3226','1076',1351,5009,4056,'MODERATE','17/26','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000507625',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3332','3226','1076',1528,4843,4587,'MODERATE','17/23','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000504896',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3117','3022','1008',1283,4816,3852,'MODERATE','16/25','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000514157',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3117','3022','1008',1274,4789,3825,'MODERATE','16/24','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3226A>G','ENST00000506746',-1,'missense_variant','protein_coding',false,'p.Thr1076Ala','3226','3226','1076',1571,4935,4716,'MODERATE','17/24','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000508946',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3022','3022','1008',1512,4758,4539,'MODERATE','16/24','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.3022A>G','ENST00000514996',-1,'missense_variant','protein_coding',false,'p.Thr1008Ala','3022','3022','1008',1503,4731,4512,'MODERATE','16/23','',0,'LPHN3','transcript',-1,''),
+                        ('G','c.1393A>G','ENST00000502815',-1,'missense_variant','protein_coding',false,'p.Thr465Ala','1394','1393','465',917,4284,2754,'MODERATE','8/14','',0,'LPHN3','transcript',-1,'WARNING_TRANSCRIPT_NO_START_CODON'),
+                        ('G','c.3022A>G','ENST00000512091',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'LPHN3','topological_domain:Extracellular',-1,''),
+                        ('A','c.2219G>T','ENST00000272427',-1,'missense_variant','protein_coding',false,'p.Trp740Leu','2350','2219','740',811,5918,2436,'MODERATE','21/22','',0,'EXOC6B','transcript',-1,''),
+                        ('A','n.158G>T','ENST00000490919',-1,'non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','3/4','',0,'EXOC6B','transcript',-1,''),
+                        ('A','n.140G>T','ENST00000471335',-1,'non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','3/4','',0,'EXOC6B','transcript',-1,''),
+                        ('A','n.183G>T','ENST00000492257',-1,'non_coding_exon_variant','processed_transcript',false,'','','','',-1,-1,-1,'MODIFIER','2/3','',0,'EXOC6B','transcript',-1,''),
+                        ('G','c.1381C>G','ENST00000286398',-1,'missense_variant','protein_coding',false,'p.Leu461Val','1669','1381','461',1197,5976,3594,'MODERATE','11/25','',0,'SMC2','transcript',-1,''),
+                        ('G','c.1381C>G','ENST00000374793',-1,'missense_variant','protein_coding',false,'p.Leu461Val','1594','1381','461',1197,5909,3594,'MODERATE','11/25','',0,'SMC2','transcript',-1,''),
+                        ('G','c.1381C>G','ENST00000303219',-1,'missense_variant','protein_coding',false,'p.Leu461Val','1731','1381','461',1099,3650,3300,'MODERATE','11/24','',0,'SMC2','transcript',-1,''),
+                        ('G','c.1381C>G','ENST00000374787',-1,'missense_variant','protein_coding',false,'p.Leu461Val','1717','1381','461',1197,4266,3594,'MODERATE','11/25','',0,'SMC2','transcript',-1,''),
+                        ('G','c.1381C>G','ENST00000303219',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'SMC2','coiled-coil_region',-1,''),
+                        ('G','c.1381C>G','ENST00000374787',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'SMC2','coiled-coil_region',-1,''),
+                        ('C','c.586A>G','ENST00000306480',-1,'missense_variant','protein_coding',false,'p.Arg196Gly','732','586','196',271,6198,816,'MODERATE','5/6','',0,'TMEM192','transcript',-1,''),
+                        ('C','c.574A>G','ENST00000506087',-1,'missense_variant','protein_coding',false,'p.Arg192Gly','757','574','192',267,2225,804,'MODERATE','6/7','',0,'TMEM192','transcript',-1,''),
+                        ('C','c.163A>G','ENST00000505095',-1,'missense_variant','protein_coding',false,'p.Arg55Gly','698','163','55',83,789,254,'MODERATE','6/6','',0,'TMEM192','transcript',-1,'WARNING_TRANSCRIPT_INCOMPLETE'),
+                        ('C','c.586A>G','ENST00000306480',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'TMEM192','topological_domain:Cytoplasmic',-1,''),
+                        ('C','c.574A>G','ENST00000506087',-1,'sequence_feature','protein_coding',false,'','','','',-1,-1,-1,'LOW','','',0,'TMEM192','topological_domain:Cytoplasmic',-1,''),
+                        ('T','c.3152G>A','ENST00000399788',-1,'missense_variant','protein_coding',false,'p.Arg1051Gln','3515','3152','1051',1690,10763,5073,'MODERATE','21/28','',0,'KDM5A','transcript',-1,''),
+                        ('T','c.3152G>A','ENST00000382815',-1,'missense_variant','protein_coding',false,'p.Arg1051Gln','3515','3152','1051',1636,5274,4911,'MODERATE','21/28','',0,'KDM5A','transcript',-1,''),
+                        ('T','c.2009G>A','ENST00000544760',-1,'missense_variant','protein_coding',false,'p.Arg670Gln','2200','2009','670',714,2338,2147,'MODERATE','12/13','',0,'KDM5A','transcript',-1,'WARNING_TRANSCRIPT_INCOMPLETE'),
+                        ('T','n.-3176G>A','ENST00000540156',-1,'upstream_gene_variant','retained_intron',false,'','','','',-1,-1,-1,'MODIFIER','','',0,'KDM5A','transcript',3176,''),
+                        ('T','n.266G>A','ENST00000535269',-1,'non_coding_exon_variant','retained_intron',false,'','','','',-1,-1,-1,'MODIFIER','1/2','',0,'KDM5A','transcript',-1,''),
+                        ('A','c.1271G>A','ENST00000262794',-1,'missense_variant','protein_coding',false,'p.Arg424His','1354','1271','424',1211,3960,3636,'MODERATE','9/27','',0,'MOV10L1','transcript',-1,''),
+                        ('A','c.1271G>A','ENST00000545383',-1,'missense_variant','protein_coding',false,'p.Arg424His','1355','1271','424',1211,3889,3636,'MODERATE','10/28','',0,'MOV10L1','transcript',-1,''),
+                        ('A','c.1271G>A','ENST00000395858',-1,'missense_variant','protein_coding',false,'p.Arg424His','1295','1271','424',1165,3763,3498,'MODERATE','9/26','',0,'MOV10L1','transcript',-1,''),
+                        ('A','c.1211G>A','ENST00000540615',-1,'missense_variant','protein_coding',false,'p.Arg404His','1431','1211','404',1165,3941,3498,'MODERATE','9/26','',0,'MOV10L1','transcript',-1,''),
+                        ('A','c.-1436G>A','ENST00000395843',-1,'5_prime_UTR_variant','protein_coding',false,'','','','',-1,-1,-1,'MODIFIER','9/22','',0,'MOV10L1','transcript',32526,''),
+                        ('A','n.308G>A','ENST00000434497',-1,'non_coding_exon_variant','nonsense_mediated_decay',false,'','','','',-1,-1,-1,'MODIFIER','3/7','',0,'MOV10L1','transcript',-1,'');
+
+--
+-- Name: ensembl; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    version integer,
+    date character varying,
+    referencegenome_id bigint
+);
+
+INSERT INTO ensembl(version, date, referencegenome_id) VALUES (1, '01/01/2020', 1),
+                                                              (2, '01/01/2021', 1);
+
+
+--
+-- Name: ensembl_gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE ensembl_gene (
+    ensembl_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+INSERT INTO ensembl_gene(ensembl_id, gene_id) VALUES (2, 1), (2,2),
+                                                     (2,3),(2,4),
+                                                     (2,5), (2,6),
+                                                     (2,7), (2,8),
+                                                     (2,9), (2,10),
+                                                     (2,11), (2,12),
+                                                     (2,13), (2,14),
+                                                     (2,15), (2,16),
+                                                     (2,17), (2,18),
+                                                     (2,19), (2,20),
+                                                     (2,21), (2,22),
+                                                     (2,23), (2,24),
+                                                     (2,25), (2,26),
+                                                     (2,27), (2,28),
+                                                     (2,29), (2,30),
+                                                     (2,31), (2,32),
+                                                     (2,33), (2,34),
+                                                     (2,35), (2,36),
+                                                     (2,37), (2,38),
+                                                     (2,39), (2,40),
+                                                     (2,41), (2,42),
+                                                     (2,43), (2,44),
+                                                     (2,45), (2,46),
+                                                     (2,47), (2,48),
+                                                     (2,49), (2,50),
+                                                     (2,51), (2,52),
+                                                     (2,53), (2,54),
+                                                     (2,55), (2,56),
+                                                     (2,57), (2,58),
+                                                     (2,59), (2,60),
+                                                     (2,61), (2,62),
+                                                     (2,63), (2,64),
+                                                     (2,65), (2,66),
+                                                     (2,67), (2,68),
+                                                     (2,69), (2,70),
+                                                     (2,71), (2,72),
+                                                     (2,73), (2,74),
+                                                     (2,75), (2,76),
+                                                     (2,77), (2,78),
+                                                     (2,79), (2,80),
+                                                     (2,81), (2,82),
+                                                     (2,83), (2,84),
+                                                     (2,85), (2,86),
+                                                     (2,87), (2,88),
+                                                     (2,89), (2,90),
+                                                     (2,91);
+
+
+--
+-- Name: entity; Type: TABLE; Schema: variantstore;
+-- id character varying NOT NULL,
+
+CREATE TABLE entity (
+    id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    project_id bigint NOT NULL
+);
+
+INSERT INTO entity(identifier, project_id) VALUES ('patient1', (select id FROM project WHERE identifier='PROJ')),
+                                                  ('patient2', (select id FROM project WHERE identifier='PROJ')),
+                                                  ('patient3', (select id FROM project WHERE identifier='PROJ'));
+
+--
+-- Name: gene; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    symbol character varying,
+    name character varying,
+    biotype character varying,
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    synonyms character varying[],
+    geneid character varying,
+    description character varying,
+    strand character varying,
+    version integer
+);
+
+INSERT INTO gene(symbol, name, biotype, chr, start, "end", synonyms, geneid, description, strand, version)
+VALUES
+       ('LAMA3',NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000053747',NULL,NULL,NULL),
+       ('LAMA3',NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000053747',NULL,NULL,NULL),
+       ('LAMA3',NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000053747',NULL,NULL,NULL),
+       ('LAMA3',NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000053747',NULL,NULL,NULL),
+       ('LAMA3',NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000053747',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073146',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073614',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073614',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073614',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073614',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000073614',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000111371',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115602',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115602',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115602',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115604',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115604',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000115604',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000136824',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000144036',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000144036',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000144036',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000144036',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000149294',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000150471',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000155961',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000155961',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000165181',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000165181',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000165181',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000165181',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000165181',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000166349',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000166349',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000166349',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000170088',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000170088',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000170088',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000170088',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000170088',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000175097',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL),
+       (NULL,NULL,NULL,NULL,NULL,NULL,NULL,'ENSG00000248905',NULL,NULL,NULL);
+
+--
+-- Name: gene_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE gene_consequence (
+    consequence_id bigint NOT NULL,
+    gene_id bigint NOT NULL
+);
+
+INSERT INTO gene_consequence(consequence_id, gene_id)
+VALUES (1,1),(2,1),
+       (3,1),(4,1),
+       (5,1),(6,1),
+       (7,7),(8,7),
+       (9,7),(10,7),
+       (11,7),(12,7),
+       (13,7),(14,7),
+       (15,15),(16,15),
+       (17,15),(18,15),
+       (19,15),(20,20),
+       (21,21),(22,21),
+       (23,21),(24,21),
+       (25,21),(26,26),
+       (27,26),(28,26),
+       (29,29),(30,29),
+       (31,29),(32,32),
+       (33,32),(34,34),
+       (35,32),(36,36),
+       (37,36),(38,36),
+       (39,36),(40,36),
+       (41,36),(42,36),
+       (43,36),(44,36),
+       (45,36),(46,36),
+       (47,36),(48,36),
+       (49,36),(50,36),
+       (51,36),(52,36),
+       (53,53),(54,53),
+       (55,53),(56,53),
+       (57,53),(58,53),
+       (59,53),(60,53),
+       (61,53),(62,53),
+       (63,53),(64,53),
+       (65,53),(66,53),
+       (67,53),(68,53),
+       (69,53),(71,71),
+       (72,71),(73,71),
+       (74,71),(75,75),
+       (76,75),(77,75),
+       (78,75),(79,75),
+       (80,75),(81,81),
+       (82,81),(83,81),
+       (84,81),(85,81),
+       (86,86),(87,86),
+       (88,86),(89,86),
+       (90,86),(91,91),
+       (92,91),(93,91),
+       (94,91),(95,91),
+       (96,91);
+
+--
+-- Name: genotype; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE genotype (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    genotype character varying,
+    readdepth integer,
+    filter character varying,
+    likelihoods character varying,
+    genotypelikelihoods character varying,
+    genotypelikelihoodshet character varying,
+    posteriorprobs character varying,
+    genotypequality integer,
+    haplotypequalities character varying,
+    phaseset character varying,
+    phasingquality integer,
+    alternateallelecounts character varying,
+    mappingquality integer
+);
+
+INSERT INTO genotype(genotype, readdepth, filter, likelihoods, genotypelikelihoods, genotypelikelihoodshet,
+                     posteriorprobs, genotypequality, haplotypequalities, phaseset, phasingquality,
+                     alternateallelecounts, mappingquality)
+VALUES ('A', NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL),
+       ('C', NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL),
+       ('G', NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL);
+
+--
+-- Name: referencegenome; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    source character varying,
+    build character varying,
+    version character varying
+);
+
+INSERT INTO referencegenome(source, build, version) VALUES ('Ensembl','GRCh37','17');
+
+--
+-- Name: referencegenome_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE referencegenome_variant (
+    referencegenome_id bigint NOT NULL,
+    variant_id bigint NOT NULL
+);
+
+--
+-- Name: sample; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    identifier character varying,
+    cancerentity character varying,
+    entity_id bigint
+);
+
+INSERT INTO sample(identifier, cancerentity, entity_id) VALUES ('QTEST001AL','HCC', (select id FROM entity WHERE identifier='patient1')),
+                                                               ('QTEST002AT','BRCA', (select id FROM entity WHERE identifier='patient2')),
+                                                               ('QTEST003A3','ALL', (select id FROM entity WHERE identifier='patient3'));
+
+--
+-- Name: sample_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE sample_variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    sample_id bigint,
+    variant_id bigint,
+    vcfinfo_id bigint,
+    genotype_id bigint
+);
+
+INSERT INTO sample_variant(sample_id, variant_id, vcfinfo_id, genotype_id)
+VALUES (1,1,1,1),
+       (1,2,2,1),
+       (1,3,3,1),
+       (1,4,4,1),
+       (1,5,5,1),
+       (2,4,4,1),
+       (2,6,6,1),
+       (2,7,7,1),
+       (2,8,8,1),
+       (2,9,9,1),
+       (3,11,11,1),
+       (3,12,12,1),
+       (3,13,13,1),
+       (3,14,14,1),
+       (3,15,15,1);
+
+
+
+--
+-- Name: variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    chr character varying,
+    start bigint,
+    "end" bigint,
+    ref character varying,
+    obs character varying,
+    somatic boolean,
+    identifier character varying,
+    databaseidentifier character varying
+);
+
+INSERT INTO variant(chr, start, "end", ref, obs, somatic, identifier, databaseidentifier)
+VALUES ('15',33359344,33359344,'T','C',true,'e741f1f2-2c39-4d00-b311-5bf4cf896005', '.'),
+       ('12',46601390,46601390,'C','G',true,'d0b9a24d-e95a-44a2-8279-e895772f97cf','.'),
+       ('9',114518682,114518682,'G','T',true,'aed9a27b-f9aa-4f8f-911f-81936aef306e','.'),
+       ('X',154493388,154493388,'G','C',true,'c001f62d-5729-4dd8-9900-2f62d768a12d','.'),
+       ('18',21269861,21269861,'G','C',true,'eb88a067-8c81-4c74-81e7-27d059c09add','.'),
+       ('2',102968155,102968155,'T','C',true,'c68a421d-1028-405e-8ee0-17b6a250e1ad','.'),
+       ('11',36596216,36596216,'G','A',true,'ccefd3cf-0737-4c73-bb1b-a3e45ab8d591','.'),
+       ('11',113111509,113111509,'G','T',true,'ab938f60-1d0d-4124-a548-8a5b4575f1c8','.'),
+       ('4',62849311,62849311,'A','G',true,'74632419-3371-4920-b9d6-638a7860fc64','.'),
+       ('2',72411294,72411294,'C','A',true,'4ad08366-6b4c-4b98-8ea5-24a5637ca417','.'),
+       ('9',106875723,106875723,'C','G',true,'9d9840fe-085d-4bc4-b9f1-a881662616d8','.'),
+       ('4',166006829,166006829,'T','C',true,'7ddac11f-f383-462f-8c4a-4cefdbe79da5','.'),
+       ('12',420115,420115,'C','T',true,'a44d09a9-198b-4849-a2ea-06cd004123a6','.'),
+       ('22',50555597,50555597,'G','A',true,'ca32be21-bae0-46a2-9f7d-5a707256bc75','.');
+
+
+INSERT INTO referencegenome_variant(referencegenome_id, variant_id)
+VALUES ((select id FROM referencegenome WHERE build='GRCh37'),1),
+       ((select id FROM referencegenome WHERE build='GRCh37'),2),
+       ((select id FROM referencegenome WHERE build='GRCh37'),3),
+       ((select id FROM referencegenome WHERE build='GRCh37'),4),
+       ((select id FROM referencegenome WHERE build='GRCh37'),5),
+       ((select id FROM referencegenome WHERE build='GRCh37'),6),
+       ((select id FROM referencegenome WHERE build='GRCh37'),7),
+       ((select id FROM referencegenome WHERE build='GRCh37'),8),
+       ((select id FROM referencegenome WHERE build='GRCh37'),9),
+       ((select id FROM referencegenome WHERE build='GRCh37'), 10),
+       ((select id FROM referencegenome WHERE build='GRCh37'), 11),
+       ((select id FROM referencegenome WHERE build='GRCh37'), 12),
+       ((select id FROM referencegenome WHERE build='GRCh37'), 13),
+       ((select id FROM referencegenome WHERE build='GRCh37'), 14),
+       ((select id FROM referencegenome WHERE build='GRCh37'),15);
+--
+-- Name: variant_consequence; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variant_consequence (
+    variant_id bigint NOT NULL,
+    consequence_id bigint NOT NULL
+);
+
+INSERT INTO variant_consequence(variant_id, consequence_id)
+VALUES (1, 1),
+       (1, 2),
+       (1, 3),
+       (1, 4),
+       (1, 5),
+       (1, 6),
+       (2, 7),
+       (2, 8),
+       (2, 9),
+       (2, 10),
+       (2, 11),
+       (2, 12),
+       (2, 13),
+       (2, 14),
+       (3, 15),
+       (3, 16),
+       (3, 17),
+       (3, 18),
+       (3, 19),
+       (4, 20),
+       (5, 21),
+       (5, 22),
+       (5, 23),
+       (5, 24),
+       (5, 25),
+       (6, 26),
+       (6, 27),
+       (6, 28),
+       (6, 29),
+       (6, 30),
+       (6, 31),
+       (7, 32),
+       (7, 33),
+       (7, 34),
+       (7, 35),
+       (8, 36),
+       (8, 37),
+       (8, 38),
+       (8, 39),
+       (8, 40),
+       (8, 41),
+       (8, 42),
+       (8, 43),
+       (8, 44),
+       (8, 45),
+       (8, 46),
+       (8, 47),
+       (8, 48),
+       (8, 49),
+       (8, 50),
+       (8, 51),
+       (8, 52),
+       (9, 53),
+       (9, 54),
+       (9, 55),
+       (9, 56),
+       (9, 57),
+       (9, 58),
+       (9, 59),
+       (9, 60),
+       (9, 61),
+       (9, 62),
+       (9, 63),
+       (9, 64),
+       (9, 65),
+       (9, 66),
+       (9, 67),
+       (9, 68),
+       (9, 69),
+       (11, 71),
+       (11, 72),
+       (11, 73),
+       (11, 74),
+       (12, 75),
+       (12, 76),
+       (12, 77),
+       (12, 78),
+       (12, 79),
+       (12, 80),
+       (13, 81),
+       (13, 82),
+       (13, 83),
+       (13, 84),
+       (13, 85),
+       (14, 86),
+       (14, 87),
+       (14, 88),
+       (14, 89),
+       (14, 90),
+       (15, 91),
+       (15, 92),
+       (15, 93),
+       (15, 94),
+       (15, 95),
+       (15, 96);
+
+--
+-- Name: variantcaller; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    name character varying,
+    version character varying,
+    doi character varying
+);
+
+INSERT INTO variantcaller(name, version, doi) VALUES ('Strelka','2.0','10.1038/s41592-018-0051-x');
+
+--
+-- Name: variantcaller_variant; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE variantcaller_variant (
+    variant_id bigint NOT NULL,
+    variantcaller_id bigint NOT NULL
+);
+
+INSERT INTO variantcaller_variant(variant_id, variantcaller_id)
+VALUES (1, 1),
+       (2, 1),
+       (3, 1),
+       (4, 1),
+       (5, 1),
+       (6, 1),
+       (7, 1),
+       (8, 1),
+       (9, 1),
+       (10, 1),
+       (11, 1),
+       (12, 1),
+       (13, 1),
+       (14, 1);
+
+--
+-- Name: vcfinfo; Type: TABLE; Schema: variantstore;
+--
+
+CREATE TABLE vcfinfo (
+    id bigint NOT NULL GENERATED ALWAYS AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+    ancestralallele character varying,
+    allelecount character varying,
+    allelefrequency character varying,
+    numberalleles integer,
+    basequality integer,
+    cigar character varying,
+    dbsnp boolean,
+    hapmaptwo boolean,
+    hapmapthree boolean,
+    thousandgenomes boolean,
+    combineddepth integer,
+    endpos integer,
+    rms float8,
+    mqzero integer,
+    strandbias integer,
+    numbersamples integer,
+    somatic boolean,
+    validated boolean
+);
+
+INSERT INTO vcfinfo(ancestralallele, allelecount, allelefrequency, numberalleles, basequality, cigar, dbsnp, hapmaptwo,
+                    hapmapthree, thousandgenomes, combineddepth, endpos, rms, mqzero, strandbias, numbersamples,
+                    somatic, validated)
+VALUES ('p.E135K', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.G72S', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.I62I', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.L454L', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.L461V', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.M482T', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.N248H', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.R1051Q', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.R192G', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.R424H', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.S262*', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.T1008A', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.T613T', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false),
+       ('p.W277L', '', '', -1, -1, '', false, false, false, false, -1, -1, -1.0, -1, -1, -1, false, false);
+
+--
+-- Name: annotationsoftware annotationsoftware_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware
+    ADD CONSTRAINT annotationsoftware_pkey PRIMARY KEY (id);
+
+--
+-- Name: consequence consequence_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY consequence
+    ADD CONSTRAINT consequence_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: ensembl ensembl_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: entity entity_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: gene gene_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene
+    ADD CONSTRAINT gene_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: genotype genotype_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY genotype
+    ADD CONSTRAINT genotype_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: project project_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY project
+    ADD CONSTRAINT project_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: referencegenome referencegenome_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome
+    ADD CONSTRAINT referencegenome_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: sample sample_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variant variant_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variant
+    ADD CONSTRAINT variant_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: variantcaller variantcaller_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller
+    ADD CONSTRAINT variantcaller_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: vcfinfo vcfinfo_pkey; Type: CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY vcfinfo
+    ADD CONSTRAINT vcfinfo_pkey PRIMARY KEY (id);
+
+
+--
+-- Name: as_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX as_unique ON annotationsoftware USING btree (name, version, doi);
+
+
+--
+-- Name: ascons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ascons_unique ON annotationsoftware_consequence USING btree (consequence_id, annotationsoftware_id);
+
+
+--
+-- Name: cons_gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_gene_unique ON gene_consequence USING btree (gene_id, consequence_id);
+
+
+--
+-- Name: cons_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX cons_unique ON consequence USING btree (allele, codingchange, transcriptid, transcriptversion, type, biotype, canonical, aachange, cdnaposition, cdsposition, proteinposition, proteinlength, cdnalength, cdslength, impact, exon, intron, strand, genesymbol, featuretype, distance);
+
+
+--
+-- Name: ensembl_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX ensembl_unique ON ensembl USING btree (version, date, referencegenome_id);
+
+--
+-- Name: gene_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX gene_unique ON gene USING btree (geneid);
+
+--
+-- Name: genotype_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX genotype_unique ON genotype USING btree (genotype, readdepth, filter, likelihoods, genotypelikelihoods, genotypelikelihoodshet, posteriorprobs, genotypequality, haplotypequalities, phaseset, phasingquality, alternateallelecounts, mappingquality);
+
+--
+-- Name: idx_chromosome; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_chromosome ON variant USING btree (chr);
+
+
+--
+-- Name: idx_constype; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_constype ON consequence USING btree (type);
+
+
+--
+-- Name: idx_ensembl_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_ensembl_id ON ensembl_gene USING btree (ensembl_id);
+
+
+--
+-- Name: idx_entity_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_entity_id ON sample USING btree (entity_id);
+
+
+--
+-- Name: idx_gene_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_gene_id ON ensembl_gene USING btree (gene_id);
+
+
+--
+-- Name: idx_geneid; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_geneid ON gene USING btree (geneid);
+
+
+--
+-- Name: idx_genesymbol; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_genesymbol ON consequence USING btree (genesymbol);
+
+
+--
+-- Name: idx_rg; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg ON ensembl USING btree (referencegenome_id);
+
+
+--
+-- Name: idx_rg_build; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_rg_build ON referencegenome USING btree (build);
+
+
+--
+-- Name: idx_sample_id; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_id ON sample USING btree (identifier);
+
+
+--
+-- Name: idx_sample_variant; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_sample_variant ON sample_variant USING btree (sample_id, variant_id);
+
+
+--
+-- Name: idx_start; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_start ON variant USING btree (start);
+
+
+--
+-- Name: idx_variant_sample; Type: INDEX; Schema: variantstore;
+--
+
+CREATE INDEX idx_variant_sample ON sample_variant USING btree (variant_id, sample_id);
+
+
+--
+-- Name: rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX rg_unique ON referencegenome USING btree (source, build, version);
+
+
+--
+-- Name: sample_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_unique ON sample USING btree (identifier, cancerentity, entity_id);
+
+--
+-- Name: project_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX project_unique ON project USING btree (identifier);
+
+--
+-- Name: entity_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX entity_unique ON entity USING btree (identifier, project_id);
+
+--
+-- Name: sample_variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX sample_variant_unique ON sample_variant USING btree (sample_id, variant_id, vcfinfo_id, genotype_id);
+
+
+--
+-- Name: variant_rg_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_rg_unique ON referencegenome_variant USING btree (referencegenome_id, variant_id);
+
+
+--
+-- Name: variant_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variant_unique ON variant USING btree (chr, start, "end", ref, obs, somatic, databaseidentifier);
+
+
+--
+-- Name: variant_vc_unique; Type: INDEX; Schema: variantstore;
+--
+
+-- CREATE UNIQUE INDEX variant_vc_unique ON variantcaller_variant USING btree (variant_id, variantcaller_id);
+
+
+--
+-- Name: variantcaller_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX variantcaller_unique ON variantcaller USING btree (name, version, doi);
+
+
+--
+-- Name: vcfinfo_unique; Type: INDEX; Schema: variantstore;
+--
+
+CREATE UNIQUE INDEX vcfinfo_unique ON vcfinfo USING btree (ancestralallele, allelecount, allelefrequency, numberalleles, basequality, cigar, dbsnp, hapmaptwo, hapmapthree, thousandgenomes, combineddepth, endpos, rms, mqzero, strandbias, numbersamples, somatic, validated);
+
+-- CREATE UNIQUE INDEX variant_consequence_unique ON variant_consequence USING btree (variant_id, consequence_id);
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_annotationsoftware_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_annotationsoftware_id_fkey FOREIGN KEY (annotationsoftware_id) REFERENCES annotationsoftware(id) NOT VALID;
+
+
+--
+-- Name: annotationsoftware_consequence annotationsoftware_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY annotationsoftware_consequence
+    ADD CONSTRAINT annotationsoftware_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_ensembl_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_ensembl_id_fkey FOREIGN KEY (ensembl_id) REFERENCES ensembl(id) NOT VALID;
+
+
+--
+-- Name: ensembl_gene ensembl_gene_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl_gene
+    ADD CONSTRAINT ensembl_gene_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: ensembl ensembl_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY ensembl
+    ADD CONSTRAINT ensembl_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: entity entity_project_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY entity
+    ADD CONSTRAINT entity_project_id_fkey FOREIGN KEY (project_id) REFERENCES project(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_consequence_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- Name: gene_consequence gene_consequence_gene_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY gene_consequence
+    ADD CONSTRAINT gene_consequence_gene_id_fkey FOREIGN KEY (gene_id) REFERENCES gene(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_referencegenome_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_referencegenome_id_fkey FOREIGN KEY (referencegenome_id) REFERENCES referencegenome(id) NOT VALID;
+
+
+--
+-- Name: referencegenome_variant referencegenome_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY referencegenome_variant
+    ADD CONSTRAINT referencegenome_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample sample_entity_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample
+    ADD CONSTRAINT sample_entity_id_fkey FOREIGN KEY (entity_id) REFERENCES entity(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_genotype_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_genotype_id_fkey FOREIGN KEY (genotype_id) REFERENCES genotype(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_sample_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_sample_id_fkey FOREIGN KEY (sample_id) REFERENCES sample(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+
+--
+-- Name: sample_variant sample_variant_vcfinfo_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY sample_variant
+    ADD CONSTRAINT sample_variant_vcfinfo_id_fkey FOREIGN KEY (vcfinfo_id) REFERENCES vcfinfo(id) NOT VALID;
+
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variant_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+--
+-- Name: variantcaller_variant variantcaller_variant_variantcaller_id_fkey; Type: FK CONSTRAINT; Schema: variantstore;
+--
+
+ALTER TABLE ONLY variantcaller_variant
+    ADD CONSTRAINT variantcaller_variant_variantcaller_id_fkey FOREIGN KEY (variantcaller_id) REFERENCES variantcaller(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_variant_id_fkey FOREIGN KEY (variant_id) REFERENCES variant(id) NOT VALID;
+
+ALTER TABLE ONLY variant_consequence
+    ADD CONSTRAINT variant_consequence_consequence_id_fkey FOREIGN KEY (consequence_id) REFERENCES consequence(id) NOT VALID;
+
+
+--
+-- PostgreSQL database dump complete
+--
diff --git a/src/test/resources/db-test/transactions/V2021__transaction-db-postgres_test_db.sql b/src/test/resources/db-test/transactions/V2021__transaction-db-postgres_test_db.sql
new file mode 100644
index 0000000..b01f04c
--- /dev/null
+++ b/src/test/resources/db-test/transactions/V2021__transaction-db-postgres_test_db.sql
@@ -0,0 +1,26 @@
+--
+-- Variantstore PostgreSQL transaction database
+--
+
+CREATE SCHEMA IF NOT EXISTS transactions;
+
+SET SCHEMA 'transactions';
+
+--
+-- Name: transaction_status; Type: TABLE; Schema: transactions;
+--
+
+CREATE TABLE transactions.transaction_status (
+                         id bigint NOT NULL GENERATED BY DEFAULT AS IDENTITY ( INCREMENT 1 START 1 MINVALUE 1 MAXVALUE 2147483647 CACHE 1 ),
+                         identifier character varying,
+                         file_name character varying,
+                         file_size float,
+                         status character varying
+);
+
+--
+-- Name: transaction_status transaction_status_pkey; Type: CONSTRAINT; Schema: transactions;
+--
+
+ALTER TABLE ONLY transactions.transaction_status
+    ADD CONSTRAINT transaction_status_pkey PRIMARY KEY (id);
diff --git a/src/test/resources/db-test/transactions_mariadb/V2021__transaction-db.sql b/src/test/resources/db-test/transactions_mariadb/V2021__transaction-db.sql
new file mode 100644
index 0000000..c96a237
--- /dev/null
+++ b/src/test/resources/db-test/transactions_mariadb/V2021__transaction-db.sql
@@ -0,0 +1,37 @@
+-- MySQL Script generated by MySQL Workbench
+-- Tue Nov 10 09:54:21 2020
+-- Model: New Model    Version: 1.0
+-- MySQL Workbench Forward Engineering
+
+SET @OLD_UNIQUE_CHECKS=@@UNIQUE_CHECKS, UNIQUE_CHECKS=0;
+SET @OLD_FOREIGN_KEY_CHECKS=@@FOREIGN_KEY_CHECKS, FOREIGN_KEY_CHECKS=0;
+SET @OLD_SQL_MODE=@@SQL_MODE, SQL_MODE='ONLY_FULL_GROUP_BY,STRICT_TRANS_TABLES,NO_ZERO_IN_DATE,NO_ZERO_DATE,ERROR_FOR_DIVISION_BY_ZERO,NO_ENGINE_SUBSTITUTION';
+
+-- -----------------------------------------------------
+-- Schema transactions
+-- -----------------------------------------------------
+-- DROP SCHEMA IF EXISTS `transactions` ;
+
+-- -----------------------------------------------------
+-- Schema transactions
+-- -----------------------------------------------------
+-- CREATE SCHEMA IF NOT EXISTS `transactions` DEFAULT CHARACTER SET utf8 ;
+-- USE `transactions` ;
+
+-- -----------------------------------------------------
+-- Table `transactions`.`transaction_status`
+-- -----------------------------------------------------
+-- DROP TABLE IF EXISTS `transactions`.`transaction_status` ;
+
+CREATE TABLE IF NOT EXISTS transactions.transaction_status (
+  id int NOT NULL AUTO_INCREMENT,
+  identifier VARCHAR(36),
+  file_name VARCHAR(90),
+  file_size FLOAT,
+  status VARCHAR(45),
+  PRIMARY KEY (id))
+ENGINE = InnoDB;
+
+SET SQL_MODE=@OLD_SQL_MODE;
+SET FOREIGN_KEY_CHECKS=@OLD_FOREIGN_KEY_CHECKS;
+SET UNIQUE_CHECKS=@OLD_UNIQUE_CHECKS;