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add aliases and related files for 5 new ukd datasets
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jsheunis committed May 28, 2024
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106 changes: 1 addition & 105 deletions .../metadata/00d6eafd-f01d-5d24-8cfe-bbb463f0dc94/1.0/802/e176eb73b838422e3e67eab1f269f.json
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{
"type": "dataset",
"dataset_id": "00d6eafd-f01d-5d24-8cfe-bbb463f0dc94",
"dataset_version": "1.0",
"children": [
{
"type": "directory",
"name": "Immune_repertoire_sequencing",
"path": "Immune_repertoire_sequencing",
"dataset_id": "00d6eafd-f01d-5d24-8cfe-bbb463f0dc94",
"dataset_version": "1.0"
}
],
"metadata_sources": {
"key_source_map": {
"name": [
"tabby"
],
"description": [
"tabby"
],
"authors": [
"tabby"
],
"keywords": [
"tabby"
],
"access_request_contact": [
"tabby"
],
"additional_display": [
"tabby"
]
},
"sources": [
{
"source_name": "tabby",
"source_version": "0.1.0",
"source_parameter": {},
"source_time": 1716846994.539179,
"agent_name": "Stephan Heunis",
"agent_email": "s.heunis@fz-juelich.de"
}
]
},
"name": "CD20-Multiple Sclerosis (MS)-immune repertoire bulk-Seq dataset",
"description": "The dataset contains bulk sequencing data of FACS sorted B cells (naive B cells-NB; memory B cells - MB) and T cells (CD4+, CD8+) T cells from peripheral blood mononuclear cells (PBMCs) of 1 Multiple Sclerosis (MS) patients treated with Ocrelizumab (Ocrevuz). For treated patient TP1: 6m before baseline; TP2: Baseline; TP3: cycle 1 + 3 months; TP4: cycle 1 + 6 months; TP5: cycle 2 + 5 months. ",
"authors": [
{
"name": "Sumanta Barman"
},
{
"name": "Simona Matzke"
},
{
"name": "Sven G Meuth"
},
{
"name": "Norbert Goebels"
}
],
"keywords": [
"Multiple Sclerosis",
"bulk sequencing",
"peripheral blood",
"ocrelizumab"
],
"access_request_contact": {
"givenName": "Sumanta",
"familyName": "Barman",
"email": "Sumanta.Barman@med.uni-duesseldorf.de"
},
"additional_display": [
{
"name": "ABCD-J",
"icon": "fa-solid fa-graduation-cap",
"content": {
"@context": {
"homepage": "https://schema.org/mainEntityOfPage",
"data controller": "https://w3id.org/dpv#hasDataController",
"sample (organism)": "https://openminds.ebrains.eu/controlledTerms/Species",
"sample (organism part)": "https://openminds.ebrains.eu/controlledTerms/CellType",
"used for": "http://www.w3.org/ns/prov#hadUsage"
},
"sample (organism)": {
"@type": "https://openminds.ebrains.eu/controlledTerms/Species",
"name": "Homo sapiens",
"preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCBITaxon_9606",
"synonym": "human"
},
"sample (organism part)": {
"@type": "https://openminds.ebrains.eu/controlledTerms/CellType",
"name": "Peripheral Blood Mononuclear Cell",
"preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCIT_C12954",
"synonym": "PBMC"
},
"data controller": {
"@type": "https://schema.org/Person",
"email": "Sumanta.Barman@med.uni-duesseldorf.de",
"name": "Sumanta Barman"
}
}
}
]
}
{"type": "dataset", "dataset_id": "00d6eafd-f01d-5d24-8cfe-bbb463f0dc94", "dataset_version": "1.0", "children": [{"type": "directory", "name": "Immune_repertoire_sequencing", "path": "Immune_repertoire_sequencing", "dataset_id": "00d6eafd-f01d-5d24-8cfe-bbb463f0dc94", "dataset_version": "1.0"}], "metadata_sources": {"key_source_map": {"name": ["tabby"], "description": ["tabby"], "authors": ["tabby"], "keywords": ["tabby"], "access_request_contact": ["tabby"], "additional_display": ["tabby"], "alias": ["automated_alias_entry"]}, "sources": [{"source_name": "tabby", "source_version": "0.1.0", "source_parameter": {}, "source_time": 1716846994.539179, "agent_name": "Stephan Heunis", "agent_email": "s.heunis@fz-juelich.de"}, {"source_name": "automated_alias_entry", "source_version": "0.1.0", "source_parameter": {}, "source_time": 1716886792.920916, "agent_name": "Stephan Heunis", "agent_email": "s.heunis@fz-juelich.de"}]}, "name": "CD20-Multiple Sclerosis (MS)-immune repertoire bulk-Seq dataset", "description": "The dataset contains bulk sequencing data of FACS sorted B cells (naive B cells-NB; memory B cells - MB) and T cells (CD4+, CD8+) T cells from peripheral blood mononuclear cells (PBMCs) of 1 Multiple Sclerosis (MS) patients treated with Ocrelizumab (Ocrevuz). For treated patient TP1: 6m before baseline; TP2: Baseline; TP3: cycle 1 + 3 months; TP4: cycle 1 + 6 months; TP5: cycle 2 + 5 months. ", "authors": [{"name": "Sumanta Barman"}, {"name": "Simona Matzke"}, {"name": "Sven G Meuth"}, {"name": "Norbert Goebels"}], "keywords": ["Multiple Sclerosis", "bulk sequencing", "peripheral blood", "ocrelizumab"], "access_request_contact": {"givenName": "Sumanta", "familyName": "Barman", "email": "Sumanta.Barman@med.uni-duesseldorf.de"}, "additional_display": [{"name": "ABCD-J", "icon": "fa-solid fa-graduation-cap", "content": {"@context": {"homepage": "https://schema.org/mainEntityOfPage", "data controller": "https://w3id.org/dpv#hasDataController", "sample (organism)": "https://openminds.ebrains.eu/controlledTerms/Species", "sample (organism part)": "https://openminds.ebrains.eu/controlledTerms/CellType", "used for": "http://www.w3.org/ns/prov#hadUsage"}, "sample (organism)": {"@type": "https://openminds.ebrains.eu/controlledTerms/Species", "name": "Homo sapiens", "preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCBITaxon_9606", "synonym": "human"}, "sample (organism part)": {"@type": "https://openminds.ebrains.eu/controlledTerms/CellType", "name": "Peripheral Blood Mononuclear Cell", "preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCIT_C12954", "synonym": "PBMC"}, "data controller": {"@type": "https://schema.org/Person", "email": "Sumanta.Barman@med.uni-duesseldorf.de", "name": "Sumanta Barman"}}}], "alias": "CD20-MS-IR-bulk-Seq"}
1 change: 1 addition & 0 deletions catalog/metadata/00d6eafd-f01d-5d24-8cfe-bbb463f0dc94/e1ff2a3f6e384ea666cc0500622f9c61.json
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{"type": "redirect", "dataset_id": "00d6eafd-f01d-5d24-8cfe-bbb463f0dc94", "dataset_version": "1.0"}
155 changes: 1 addition & 154 deletions .../metadata/25277dfb-826b-5378-8bec-f02c130b5613/1.0/fe6/397ca55f8bfcae85bccb18fc618ef.json
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{
"type": "dataset",
"dataset_id": "25277dfb-826b-5378-8bec-f02c130b5613",
"dataset_version": "1.0",
"children": [
{
"type": "directory",
"name": "Immune_repertoire_sequencing",
"path": "Immune_repertoire_sequencing",
"dataset_id": "25277dfb-826b-5378-8bec-f02c130b5613",
"dataset_version": "1.0"
}
],
"metadata_sources": {
"key_source_map": {
"name": [
"tabby"
],
"description": [
"tabby"
],
"authors": [
"tabby"
],
"keywords": [
"tabby"
],
"funding": [
"tabby"
],
"publications": [
"tabby"
],
"access_request_contact": [
"tabby"
],
"url": [
"tabby"
],
"additional_display": [
"tabby"
]
},
"sources": [
{
"source_name": "tabby",
"source_version": "0.1.0",
"source_parameter": {},
"source_time": 1716847046.274842,
"agent_name": "Stephan Heunis",
"agent_email": "s.heunis@fz-juelich.de"
}
]
},
"name": "Myasthenia gravis (MG)-BCR repertoire bulk-Seq dataset",
"description": "The dataset contains bulk seqeuncing data of B cells (Heavy chain, lamda chain and kappa chain) from the peripheral blood mononuclear cells (PBMCs) of 12 Myasthenia gravis (MG) patients. These 12 patients are identified as four distinct patient phenotypes based on their proteomic patterns. 3 patients consist of each subgroups which is denoted as protein signature (PS) 1 to PS4.",
"authors": [
{
"name": "Sumanta Barman"
},
{
"name": "Christopher Nelke"
},
{
"name": "Sven G. Meuth"
},
{
"name": "Tobias Ruck"
}
],
"keywords": [
"Myasthenia gravis",
"bulk sequencing",
"peripheral blood"
],
"funding": [
{
"@type": "schema:Grant",
"name": "Else-Kr\u00f6ner-Fresenius-Stiftung ",
"identifier": "EKEA.38"
},
{
"@type": "schema:Grant",
"name": "DFG - German Research Foundation",
"identifier": "539363086.0"
},
{
"@type": "schema:Grant",
"name": "Ministry of Culture and Science of North Rhine-Westphalia",
"identifier": "PROFILNRW-2020\u2013107-A"
}
],
"publications": [
{
"@type": "schema:CreativeWork",
"doi": "",
"title": "C. Nelke, C. B. Schroeter, S. Barman, F. Stascheit, L. Masanneck, L. Theissen, N. Huntemann, D. Cengiz, V. Dobelmann, M. Pawlitzki, S. R\u00e4uber, H. P. Hartung, S. K\u00f6nig, A. Roos, A. Meisel, Sven G. Meuth, T. Ruck, Proteomics-based consensus clustering identifies distinct disease phenotypes in myasthenia gravis.",
"authors": []
}
],
"access_request_contact": {
"givenName": "Sumanta",
"familyName": "Barman",
"email": "Sumanta.Barman@med.uni-duesseldorf.de"
},
"url": "",
"additional_display": [
{
"name": "ABCD-J",
"icon": "fa-solid fa-graduation-cap",
"content": {
"@context": {
"homepage": "https://schema.org/mainEntityOfPage",
"data controller": "https://w3id.org/dpv#hasDataController",
"sample (organism)": "https://openminds.ebrains.eu/controlledTerms/Species",
"sample (organism part)": "https://openminds.ebrains.eu/controlledTerms/CellType",
"used for": "http://www.w3.org/ns/prov#hadUsage"
},
"sample (organism)": {
"@type": "https://openminds.ebrains.eu/controlledTerms/Species",
"name": "Homo sapiens",
"preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCBITaxon_9606",
"synonym": "human"
},
"sample (organism part)": {
"@type": "https://openminds.ebrains.eu/controlledTerms/CellType",
"name": "Peripheral Blood Mononuclear Cell",
"preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCIT_C12954",
"synonym": "PBMC"
},
"homepage": {
"@type": "https://schema.org/URL",
"@value": "https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA1012710"
},
"data controller": [
{
"@type": "https://schema.org/Person",
"email": "Sumanta.Barman@med.uni-duesseldorf.de",
"name": "Sumanta Barman"
},
{
"@type": "https://schema.org/Person",
"email": "ChristopherJannik.Nelke@med.uni-duesseldorf.de",
"name": "Christopher Nelke"
}
],
"used for": {
"@type": "https://schema.org/Thing",
"name": "Immunogenomic analysis of the B cell receptor repertoire "
}
}
}
]
}
{"type": "dataset", "dataset_id": "25277dfb-826b-5378-8bec-f02c130b5613", "dataset_version": "1.0", "children": [{"type": "directory", "name": "Immune_repertoire_sequencing", "path": "Immune_repertoire_sequencing", "dataset_id": "25277dfb-826b-5378-8bec-f02c130b5613", "dataset_version": "1.0"}], "metadata_sources": {"key_source_map": {"name": ["tabby"], "description": ["tabby"], "authors": ["tabby"], "keywords": ["tabby"], "funding": ["tabby"], "publications": ["tabby"], "access_request_contact": ["tabby"], "url": ["tabby"], "additional_display": ["tabby"], "alias": ["automated_alias_entry"]}, "sources": [{"source_name": "tabby", "source_version": "0.1.0", "source_parameter": {}, "source_time": 1716847046.274842, "agent_name": "Stephan Heunis", "agent_email": "s.heunis@fz-juelich.de"}, {"source_name": "automated_alias_entry", "source_version": "0.1.0", "source_parameter": {}, "source_time": 1716886792.957366, "agent_name": "Stephan Heunis", "agent_email": "s.heunis@fz-juelich.de"}]}, "name": "Myasthenia gravis (MG)-BCR repertoire bulk-Seq dataset", "description": "The dataset contains bulk seqeuncing data of B cells (Heavy chain, lamda chain and kappa chain) from the peripheral blood mononuclear cells (PBMCs) of 12 Myasthenia gravis (MG) patients. These 12 patients are identified as four distinct patient phenotypes based on their proteomic patterns. 3 patients consist of each subgroups which is denoted as protein signature (PS) 1 to PS4.", "authors": [{"name": "Sumanta Barman"}, {"name": "Christopher Nelke"}, {"name": "Sven G. Meuth"}, {"name": "Tobias Ruck"}], "keywords": ["Myasthenia gravis", "bulk sequencing", "peripheral blood"], "funding": [{"@type": "schema:Grant", "name": "Else-Kr\u00f6ner-Fresenius-Stiftung ", "identifier": "EKEA.38"}, {"@type": "schema:Grant", "name": "DFG - German Research Foundation", "identifier": "539363086.0"}, {"@type": "schema:Grant", "name": "Ministry of Culture and Science of North Rhine-Westphalia", "identifier": "PROFILNRW-2020\u2013107-A"}], "publications": [{"@type": "schema:CreativeWork", "doi": "", "title": "C. Nelke, C. B. Schroeter, S. Barman, F. Stascheit, L. Masanneck, L. Theissen, N. Huntemann, D. Cengiz, V. Dobelmann, M. Pawlitzki, S. R\u00e4uber, H. P. Hartung, S. K\u00f6nig, A. Roos, A. Meisel, Sven G. Meuth, T. Ruck, Proteomics-based consensus clustering identifies distinct disease phenotypes in myasthenia gravis.", "authors": []}], "access_request_contact": {"givenName": "Sumanta", "familyName": "Barman", "email": "Sumanta.Barman@med.uni-duesseldorf.de"}, "url": "", "additional_display": [{"name": "ABCD-J", "icon": "fa-solid fa-graduation-cap", "content": {"@context": {"homepage": "https://schema.org/mainEntityOfPage", "data controller": "https://w3id.org/dpv#hasDataController", "sample (organism)": "https://openminds.ebrains.eu/controlledTerms/Species", "sample (organism part)": "https://openminds.ebrains.eu/controlledTerms/CellType", "used for": "http://www.w3.org/ns/prov#hadUsage"}, "sample (organism)": {"@type": "https://openminds.ebrains.eu/controlledTerms/Species", "name": "Homo sapiens", "preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCBITaxon_9606", "synonym": "human"}, "sample (organism part)": {"@type": "https://openminds.ebrains.eu/controlledTerms/CellType", "name": "Peripheral Blood Mononuclear Cell", "preferredOntologyIdentifier": "http://purl.obolibrary.org/obo/NCIT_C12954", "synonym": "PBMC"}, "homepage": {"@type": "https://schema.org/URL", "@value": "https://www.ncbi.nlm.nih.gov/sra/?term=PRJNA1012710"}, "data controller": [{"@type": "https://schema.org/Person", "email": "Sumanta.Barman@med.uni-duesseldorf.de", "name": "Sumanta Barman"}, {"@type": "https://schema.org/Person", "email": "ChristopherJannik.Nelke@med.uni-duesseldorf.de", "name": "Christopher Nelke"}], "used for": {"@type": "https://schema.org/Thing", "name": "Immunogenomic analysis of the B cell receptor repertoire "}}}], "alias": "MG-BCR-IR-bulk-Seq"}
1 change: 1 addition & 0 deletions catalog/metadata/25277dfb-826b-5378-8bec-f02c130b5613/18da6232471f40017ebdf62266b7984e.json
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{"type": "redirect", "dataset_id": "25277dfb-826b-5378-8bec-f02c130b5613", "dataset_version": "1.0"}
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