- 🚩 The original intention of creating this repository is to integrate the latest existing neuroscience databases, toolkits and atlas, in order to meet the needs of researchers in the field of neuroscience
- 👉 Due to my limited energy and time, there may be some data or toolkits that I have overlooked, so I appreciate your understanding. If you discover any information that has not been included, please contact me through the official account background, and thank you very much!
⚠️ This project will be continuously updated and maintained irregularly. If you find any errors or have suggestions, please upload them in the Issue
| Name | Brief descriptions | Modality | Availability |
|---|---|---|---|
| Open Access Series of Imaging Studies (OASIS) | OASIS is an initiative that provides open access to neuroimaging datasets related to brain health, focusing on healthy aging and Alzheimer’s disease research.OASIS comprises several datasets, including OASIS-1, OASIS-2, OASIS-3, and OASIS-4. These datasets have been utilized for hypothesis-driven data analyses, development of neuroanatomical atlases, and development of segmentation algorithms | sMRI,rs-fMRI,dMRI | Free |
| The Autism Brain Imaging Data Exchange (ABIDE I/II) | ABIDE is a collection of functional and structural brain imaging data aimed at accelerating our understanding of the neural bases of autism. It includes data from individuals with and without Autism Spectrum Disorder (ASD). The initiative has aggregated data collected from laboratories around the world and includes two large-scale collections: ABIDE I and ABIDE II. Each collection was created through the aggregation of datasets independently collected across more than 24 international brain imaging laboratories | rs-fMRI,sMRI | Free |
| The Adolescent Brain Cognitive Development Study (ABCD) | The ABCD Study is a prospective longitudinal study that follows nearly 12,000 youth across the United States from the ages of 9-10 through early adulthood. It is the largest and most comprehensive longitudinal study on adolescent brain development. The study includes a diverse sample of youth enrolled at 21 research sites across the country | sMRI,task-fMRI,rs-fMRI,dMRI | Apply |
| Human Connectome Project (HCP) | The HCP aims to map the healthy human connectome by collecting and freely distributing neuroimaging and behavioral data. The data includes diffusion and anatomical neuroimaging data, which are openly available to the scientific community for examination and exploration. These include brain image and results volumes obtained from the advanced Siemens 3T Connectome imaging system based at MGH, as well as data obtained using conventional imaging systems. | rs-fMRI,dMRI | Free |
| The ADHD-200 Consortium | The ADHD-200 Sample is a grassroots initiative dedicated to accelerating the scientific community’s understanding of the neural basis of ADHD. This dataset is particularly significant because Attention Deficit Hyperactivity Disorder (ADHD) affects at least 5-10% of school-age children and is associated with substantial lifelong impairment. | rs-fMRI,sMRI | Free |
| Enhancing Neuro Imaging Genetics through Meta Analysis (ENIGMA) | The ENIGMA project provides a centralized, and continuously updated, repository of meta-analytical case-control comparisons across a wide range of disorders. The ENIGMA Toolbox is an open-source repository for accessing 100+ ENIGMA-derived statistical maps, visualizing cortical and subcortical surface data, and relating neuroimaging findings to micro- and macroscale brain organization. | various types of neuroimaging data | Apply |
| The Australian Imaging, Biomarkers and Lifestyle Study (AIBL) | The AIBL study is a large-scale project aimed at understanding Alzheimer’s disease. It gathers data on biomarkers, neuroimaging, cognition, mood, health, and more. The AIBL data set is available through the same technical infrastructure as the US-based Alzheimer’s Disease Neuroimaging Initiative (ADNI), and is referred to as AIBL (Australian ADNI) | MRI,PET | Apply |
| Minimal Interval Resonance Imaging in Alzheimer's Disease (MIRIAD) | The dataset includes scans of 46 Alzheimer’s sufferers and 23 healthy elderly people1. Many scans were collected of each participant at intervals from 2 weeks to 2 years1. The study was designed to investigate the feasibility of using MRI as an outcome measure for clinical trials of Alzheimer’s treatments1. It includes a total of 708 scans and should be of particular interest for work on longitudinal biomarkers and image analysis | MRI | Apply |
| SchizConnect | SchizConnect is a virtual database that allows users to search and download public neuroimaging data related to schizophrenia. It integrates data from various heterogeneous databases, providing a single point of access for multi-site, multi-dimensional, and multi-modal data. | sMRI,fMRI,dMRI | Free |
| REST-meta-MDD I | This project was initiated to address the challenges in characterizing the pathophysiology of Major Depressive Disorder (MDD) with resting-state functional magnetic resonance imaging (R-fMRI). The consortium includes 17 participating hospitals in China and shares 25 study cohorts, including R-fMRI data from 1300 MDD patients and 1128 normal controls. The aim is to develop more effective diagnostic approaches and treatments by characterizing the neurobiological basis of MDD. | rs-fMRI | Apply |
| National Institute of Mental Health Data Archive (NDA) | The NDA makes available human subjects data collected from hundreds of research projects across many scientific domains. It provides infrastructure for sharing research data, tools, methods, and analyses enabling collaborative science and discovery. The NDA was established initially to support autism research, but has grown into an informatics platform that facilitates data sharing across all of mental health and other research communities | various types of neuroimaging data | Apply |
| Chinese Color Nest Project (CCNP) | ScienceDB is an open and trustworthy global data publishing and sharing platform. It ensures long-term preservation and data security, accelerates the globalization of data transmission, and releases data value. It is committed to open science, promoting the FAIR (Findable, Accessible, Interoperable, and Reusable) sharing of data, and serving global researchers | various types of neuroimaging data | Apply |
| Chinese Human Connectome Project (CHCP) | The Chinese Human Connectome Project (CHCP) aims to provide large sets of multimodal neuroimaging, behavioral and genetic data on the Chinese population that are comparable to the data of the HCP. The CHCP protocols were almost identical to those of the HCP, including the procedure for 3T MRI scanning, the data acquisition parameters, and the task paradigms for functional brain imaging. The CHCP also collected behavioral and genetic data that were compatible with the HCP dataset. The first public release of the CHCP dataset is in 2022 | sMRI,task-fMRI,rs-fMRI,dMRI | Free |
| The Southwest University Adult Lifespan Dataset (SALD) | The SALD aims to map the structural and functional changes the human brain undergoes throughout adulthood and to replicate previous findings. It comprises a large cross-sectional sample (n = 494; age range = 19-80) and is designed to help the scientific community understand the developmental trajectory of the human brain and the changes that occur as a function of aging | sMRI,rs-fMRI | Free |
| The Southwest University Longitudinal Imaging Multimodal Brain Data Repository (SLIM) | This dataset is a long-term test-retest sample of young healthy adults in Southwest China. It has been used to map the structure and function of the human brain, as well as its behavioral associations. The dataset includes brain and behavioral data across a long-term retest-duration within three and a half years. | sMRI,rs-fMRI,dMRI | Free |
| Sino Longitudinal Study on Cognitive Decline (SILCODE) | The study focuses on understanding the biological mechanism of subjective cognitive decline (SCD) in preclinical Alzheimer’s disease (AD) and identifying those who will soon convert to mild cognitive impairment (MCI). This is critical for developing appropriate strategies for early diagnosis and intervention of AD | sMRI,task-fMRI,rs-fMRI,dMRI | Apply |
| SUDMEX_CONN | The SUDMEX_CONN dataset is a Mexican open dataset of patients with )Cocaine Use Disorder (CUD)) and matched healthy controls.This dataset includes demographic, cognitive, clinical, and magnetic resonance imaging (MRI) data. The study was conducted at the National Institute of Psychiatry in Mexico City | sMRI,rs-fMRI,dMRI | Free |
| OpenNeuro | OpenNeuro is a )free and open platform) for sharing neuroimaging data.OpenNeuro is a data archive that follows the FAIR principles for data management. It accepts datasets formatted according to the Brain Imaging Data Structure (BIDS) standard, a community-developed standard that aims to achieve broad coverage of neuroimaging data types while unifying metadata. It’s a useful resource for your research projects | various types of neuroimaging data | Free |
| India ENIGMA Initiative | This initiative aims to address the knowledge gap in dementia research by undertaking state-of-the-art research at the National Institute of Mental Health and Neurosciences (NIMHANS), Bengaluru, India, in collaboration with the University of South California (USC), USA. The objective is to evaluate the influence of various biomarkers on brain aging. The study includes research participants such as healthy elders, persons with Alzheimer’s dementia, and persons with Mild Cognitive Impairment (MCI—a stage between normal cognitive functioning and dementia), who volunteer to participate in the research | MRI | Apply |
| REST-meta-PD | The REST-meta-PD dataset is a large-scale study that combines resting-state functional magnetic resonance imaging (RS-fMRI) data from 15 independent studies of Parkinson’s Disease (PD) patients.The REST-meta-PD study was designed to address the issue of low statistical power from small sample size studies and high analytic flexibility in neuroimaging research. It performed the voxel-wise analysis known as ‘amplitude of low frequency fluctuations’ (ALFF) | rs-fMRI | Apply |
| International Neuroimaging Data-Sharing Initiative (INDI) | INDI is a global initiative that aims to make neuroimaging datasets freely available to the research community. The platform hosts a variety of datasets, including the 1000 Functional Connectomes Project, INDI-Prospective, INDI-Retrospective, Preprocessed Connectome Project, and others. Each collection is created through the aggregation of datasets independently collected across more than 24 international brain imaging laboratories | various types of neuroimaging data | Free |
| 1000 Functional Connectomes Project (FCP) | The 1000 Functional Connectomes Project is an initiative that aims to provide the broader imaging community complete access to a large-scale functional imaging dataset. It includes over 1200 resting state functional MRI (R-fMRI) datasets independently collected at 33 sites. All datasets have been generously donated by the principal investigators from the member sites | rs-fMRI | Free |
| Consortium for Reliability and Reproducibility (CoRR) | The goal of CoRR was to create an open science resource for the imaging community that facilitates the assessment of test-retest reliability and reproducibility for functional and structural connectomics. In order to accomplish this, CoRR has aggregated resting state fMRI (R-fMRI) and diffusion imaging data from laboratories around the world. The CoRR includes 33 datasets, of which 32 are currently available for download, consisting of: 1629 Subjects, 3357 Anatomical Scans, 5093 Resting Functional Scans, 1302 Diffusion Scans, and 300 CBF and ASL Scans | sMRI,rs-fMRI,dMRI | Free |
| UK Biobank | UK Biobank is a large-scale biomedical database and research resource containing de-identified genetic, lifestyle, and health information and biological samples from half a million UK participants. It is the most comprehensive and widely-used dataset of its kind. The data collected includes imaging, genetics, health linkages, biomarkers, activity monitor data, online questionnaires, repeat baseline assessments, and samples | fMRI,sMRI | Apply |
| The Global ECT-MRI Research Collaboration (GEMRIC) | GEMRIC was founded with the belief that collaboration and mega-analysis of combined data will lead to new knowledge that can be generalized across individual research sites. The initiative aims to investigate the neural underpinnings of ****electroconvulsive therapy (ECT) ****with the ultimate goal to develop markers predicting treatment response and derive mechanistic insights to develop new treatment options. The study includes clinical and MRI neuroimaging data before and after ECT | MRI | Apply |
| Name | Brief descriptions | Platform | System |
|---|---|---|---|
| Statistical Parametric Mapping(SPM) | SPM is a software package designed for the analysis of brain imaging data sequences. The sequences can be a series of images from different cohorts, or time-series from the same subject. The current version is SPM12, released on 1st October 2014 and last updated on 13th January 2020 | MATLAB | Windows, Linux , and macOS |
| Computational Anatomy Toolbox(CAT12) | The toolbox covers diverse morphometric methods such as voxel-based morphometry (VBM), surface-based morphometry (SBM), deformation-based morphometry (DBM), and ROI- or label-based morphometry. It is developed by Christian Gaser and Robert Dahnke (Jena University Hospital, Departments of Psychiatry and Neurology). | Matlab | Windows, Linux, and macOS |
| FreeSurfer | FreeSurfer is a software suite for the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies. It is developed by the Laboratory for Computational Neuroimaging at the Athinoula A. Martinos Center for Biomedical Imaging. FreeSurfer provides a full processing stream for structural MRI data, including: skull stripping, B1 bias field correction, gray-white matter segmentation, cortical surface reconstruction (gray-white matter boundary surface and pial surface), regional parcellation on the cortical surface, and subcortical brain structures. | Software | Windows, Linux, and macOS |
| Brain Connectivity Toolbox (BCT) | The Brain Connectivity Toolbox (BCT) is a toolbox for complex-network analysis of structural and functional brain-connectivity data sets12. It aims to characterize brain connectivity with neurobiologically meaningful statistics. | Matlab, Python | Windows, Linux, and macOS |
| A graph theoretical network analysis toolbox (gretna) | GRETNA is a graph theoretical network analysis toolbox that allows researchers to perform comprehensive analysis on the topology of brain connectome by integrating most of the network measures studied in the current neuroscience field. | Matlab | Windows, UNIX |
| Parallel Graph-theoretical Analysis Toolkit (PAGANI) | The Parallel Graph-theoretical Analysis Toolkit, also known as PAGANI Toolkit, is a complete software package that can implement all processes including brain network construction and network analysis for fMRI data. It is developed based on a hybrid central processing unit–graphics processing unit (CPU-GPU) framework with a graphical user interface to facilitate the mapping and characterization of high-resolution brain networks. | Software | PC with a CUDA available GPU |
| Group ICA of fMRI Toolbox (GIFT) | GIFT (Group ICA of fMRI Toolbox) is a MATLAB toolbox that implements multiple algorithms for independent component analysis and blind source separation of group (and single subject) functional magnetic resonance imaging data. It is supported by the NIH under grant 1RO1EB000840 to Dr. Vince Calhoun and Dr. Tulay Adali. | Matlab | Windows, Linux |
| Name | Brief descriptions | Regions | Species |
|---|---|---|---|
| AAL | The Automated Anatomical Labeling (AAL) atlas is a digital atlas and software package of the human brain. It provides an automated anatomical parcellation of the spatially normalized single-subject high-resolution ‘T1’ volume provided by the Montreal Neurological Institute (MNI). The AAL atlas has undergone several versions, each adding more detailed regions of interest | whole brain | Human beings |