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This is a lower bound on availability."}]},"underexplored":{"is_underexplored":false,"basis":["Reuse is within the expected range for comparable datasets (index +0.97)."],"index_value":0.972,"percentile":73.5,"comparator_set":"132 datasets in this corpus with a citable accession and sufficient metadata","evidence":[{"method":"derived","source_url":null,"source_label":"Reuse Gap Index (rgi-huber-v2)","retrieved_at":"2026-09-21T02:11:22.976067Z","snippet":null,"locator":"Huber robust regression of log2(analyzing articles + 1) on cohort size, years available, modality breadth and access tier","confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Model, covariates and coefficients are published with the dataset export so the label can be recomputed or contested."}]},"grants":[{"core_project_num":"U24CA144025","project_num":null,"title":"Harvard Genome Characterization Center","pi_names":["Raju S. Kucherlapati"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":13968228,"org_name":"BRIGHAM AND WOMEN'S HOSPITAL","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA144025","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA144025","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143882","project_num":null,"title":"The USC-JHU Cancer Epigenome Characterization Center","pi_names":["STEPHEN B. BAYLIN","Daniel Joseph Weisenberger","PETER W LAIRD"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":13289758,"org_name":"UNIVERSITY OF SOUTHERN CALIFORNIA","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143882","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143882","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143867","project_num":null,"title":"Genome Characterization Center (GCC)","pi_names":["Stacey Gabriel","Matthew L. Meyerson"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2015,2016],"award_amount_usd":16983070,"org_name":"BROAD INSTITUTE, INC.","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143867","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143867","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143866","project_num":null,"title":"Cancer transcriptome characterization using massively parallel DNA sequencing","pi_names":["Marco Antonio Marra"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2015],"award_amount_usd":10876224,"org_name":"BRITISH COLUMBIA CANCER AGENCY","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143866","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143866","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143858","project_num":null,"title":"UCSC-Buck Inst. Genome Data Analysis Center for TCGA Research Network (GDAC)","pi_names":["Christopher Benz","DAVID H HAUSSLER"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":8873081,"org_name":"UNIVERSITY OF CALIFORNIA SANTA CRUZ","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143858","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143858","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143848","project_num":null,"title":"Gene Expression Patterns in Human Tumors Identified Using Transcript Sequencing","pi_names":["David N Hayes","CHARLES M PEROU"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":20842970,"org_name":"UNIV OF NORTH CAROLINA CHAPEL HILL","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143848","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143848","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143845","project_num":null,"title":"The Cancer Genome Atlas Data Analysis Center","pi_names":["LYNDA CHIN","GAD A GETZ"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":15987999,"org_name":"BROAD INSTITUTE, INC.","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143845","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143845","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143843","project_num":null,"title":"The BCM Tumor Genome Characterization Center","pi_names":["RICHARD A GIBBS","David Andrew Wheeler"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013],"award_amount_usd":9488061,"org_name":"BAYLOR COLLEGE OF MEDICINE","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143843","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143843","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143840","project_num":null,"title":"MSKCC Center for Translational Cancer Genomic Analysis","pi_names":["Marc Ladanyi","CHRIS SANDER"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":11508790,"org_name":"SLOAN-KETTERING INST CAN RESEARCH","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143840","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143840","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA143835","project_num":null,"title":"Center for Systems Analysis of the Cancer Regulome","pi_names":["ILYA SHMULEVICH"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2009,2010,2011,2012,2013,2014,2016],"award_amount_usd":10612504,"org_name":"INSTITUTE FOR SYSTEMS BIOLOGY","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA143835","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA143835","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126563","project_num":null,"title":"HudsonAlpha Cancer Genome Characterization Center","pi_names":["Richard M Myers"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":5615704,"org_name":"HUDSON-ALPHA INSTITUTE FOR BIOTECHNOLOGY","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126563","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126563","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126561","project_num":null,"title":"Cancer Genome Characterization Center at Johns Hopkins","pi_names":["STEPHEN B. 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Kucherlapati"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":6095365,"org_name":"BRIGHAM AND WOMEN'S HOSPITAL","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126554","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126554","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126551","project_num":null,"title":"The Berkeley Cancer Genome Center","pi_names":["JOE W. GRAY"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":5372086,"org_name":"UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126551","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126551","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126546","project_num":null,"title":"Center for Cancer Genome Characterization","pi_names":["Matthew L. Meyerson"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":7749871,"org_name":"BROAD INSTITUTE, INC.","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126546","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126546","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126544","project_num":null,"title":"Cancer Genome Characterization using Gene Expression and DNA Copy Number Analysis","pi_names":["CHARLES M PEROU"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":4916171,"org_name":"UNIV OF NORTH CAROLINA CHAPEL HILL","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126544","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126544","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"U24CA126543","project_num":null,"title":"The TCGA Cancer Genome Characterization Center at MSKCC","pi_names":["Marc Ladanyi"],"agency_ic":"CA","activity_code":"U24","fiscal_years":[2006,2007,2008,2009],"award_amount_usd":5106026,"org_name":"SLOAN-KETTERING INST CAN RESEARCH","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=U24CA126543","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under U24CA126543","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"R21CA135877","project_num":null,"title":"Tools for Large-Scale Analysis of Driver Pathways","pi_names":["Rachel Karchin"],"agency_ic":"NCI","activity_code":"R21","fiscal_years":[2008,2009],"award_amount_usd":405900,"org_name":"JOHNS HOPKINS UNIVERSITY","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=R21CA135877","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under R21CA135877","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"R01CA140323","project_num":null,"title":"Exploiting Biological Networks to Improve Clinical Treatment of Ovarian Cancer","pi_names":["ANDREW K. 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Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"R01CA094143","project_num":null,"title":"ADA3: a novel target for HPV16 E6 oncoprotein","pi_names":["VIMLA BAND"],"agency_ic":"NCI","activity_code":"R01","fiscal_years":[2002,2003,2004,2005,2006],"award_amount_usd":1704746,"org_name":"ENDEAVOR HEALTH CLINICAL OPERATIONS","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=R01CA094143","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under R01CA094143","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]},{"core_project_num":"P50CA136393","project_num":null,"title":"Personalized Vaccines Targeting Cryptic Antigens in Ovarian Cancer","pi_names":["Marion Curtis","Jamie N Bakkum-Gamez","SCOTT H KAUFMANN","Saravut Weroha","Ann Laura Oberg","Keith L. Knutson","ELLEN L. GOODE","Yajue Huang","Zhenkun Lou","Alexandre Gaspar Maia","WILLIAM A CLIBY","LARRY M KARNITZ","Branden S Moriarity","Matthew Stephen Block","MARK E SHERMAN","Fergus Joseph Couch","Gary L Keeney","Ernst Lengyel","Alan P. Fields","PAUL HALUSKA","Evanthia Galanis","KAH-WHYE PENG","Harry Long","KEITH C. BIBLE","VIJI SHRIDHAR","Debra Bell","Wilma Lingle","LYNN C. HARTMANN"],"agency_ic":"NCI","activity_code":"P50","fiscal_years":[2009,2010,2011,2012,2013,2014,2015,2016,2017,2018,2019,2021,2022,2023,2024,2025,2026],"award_amount_usd":68673452,"org_name":"MAYO CLINIC ROCHESTER","reporter_url":"https://reporter.nih.gov/search/results?text_criteria=P50CA136393","role":"generation","evidence":[{"method":"api","source_url":"https://api.reporter.nih.gov/v2/publications/search","source_label":"NIH RePORTER","retrieved_at":"2026-09-20T17:21:14.041075Z","snippet":null,"locator":"PMID 21720365 (this dataset's marker paper) reported under P50CA136393","confidence":"high","reviewer":null,"reviewed_at":null,"note":"The award is credited on the dataset's own marker paper, so it paid to produce these data rather than to analyse them. Resolved from RePORTER's publication index; only a repository-supplied or reviewer-supplied marker paper is used, never one this pipeline nominated itself."}]}],"access_steps":[{"order":1,"action":"Open the project in the GDC Data Portal","detail":"Check the portal's current case and file counts before requesting anything; the cohort can change after this record was built.","url":"https://portal.gdc.cancer.gov/projects/TCGA-OV","requires":[],"est_time":"5 minutes","cli_snippet":null,"audience":"human","evidence":[{"method":"derived","source_url":"https://portal.gdc.cancer.gov/projects/TCGA-OV","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429431Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":2,"action":"Download the open files without an account","detail":"14,519 open-access files are marked open access. Add them to a portal cart, export a manifest, and fetch it with the GDC Data Transfer Tool.","url":"https://gdc.cancer.gov/access-data/gdc-data-transfer-tool","requires":[],"est_time":"minutes to hours, by cohort size","cli_snippet":"gdc-client download -m gdc_manifest.txt","audience":"human","evidence":[{"method":"derived","source_url":"https://gdc.cancer.gov/access-data/gdc-data-transfer-tool","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429433Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":3,"action":"Request controlled access through dbGaP","detail":"18,372 controlled-access files require an approved data access request. The request starts at dbGaP, not in the portal. The relevant study is phs000178.","url":"https://gdc.cancer.gov/access-data/obtaining-access-controlled-data","requires":["eRA Commons account","institutional signing official approval","dbGaP data access request for phs000178"],"est_time":"days to a few weeks after signing official approval","cli_snippet":null,"audience":"human","evidence":[{"method":"derived","source_url":"https://gdc.cancer.gov/access-data/obtaining-access-controlled-data","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429435Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":4,"action":"Download controlled files with your token","detail":"An approved request yields a token. The same manifest fetches nothing controlled without it.","url":"https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000178","requires":["approved dbGaP request","GDC authentication token"],"est_time":null,"cli_snippet":"gdc-client download -m gdc_manifest.txt -t gdc-user-token.txt","audience":"human","evidence":[{"method":"derived","source_url":"https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000178","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429437Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":5,"action":"Query the project from code, with no credentials","detail":"The file index is public even where files are not, so an agent can size the cohort before anyone requests access.","url":"https://docs.gdc.cancer.gov/API/Users_Guide/Getting_Started/","requires":[],"est_time":null,"cli_snippet":"curl -s 'https://api.gdc.cancer.gov/files' --get \\\n  --data-urlencode 'filters={\"op\":\"in\",\"content\":{\"field\":\"cases.project.project_id\",\"value\":[\"TCGA-OV\"]}}' \\\n  --data-urlencode 'fields=file_id,file_name,data_type' \\\n  --data-urlencode 'size=10000' --data-urlencode 'format=TSV'","audience":"agent","evidence":[{"method":"derived","source_url":"https://docs.gdc.cancer.gov/API/Users_Guide/Getting_Started/","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429439Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]},{"order":6,"action":"Pass the token when the agent needs controlled files","detail":"Without a token, an API query may return only the open subset. Compare returned counts with the record before treating them as the whole cohort.","url":"https://docs.gdc.cancer.gov/API/Users_Guide/Getting_Started/","requires":["GDC authentication token"],"est_time":null,"cli_snippet":"curl -H \"X-Auth-Token: $GDC_TOKEN\" https://api.gdc.cancer.gov/data/<file_id>","audience":"agent","evidence":[{"method":"derived","source_url":"https://docs.gdc.cancer.gov/API/Users_Guide/Getting_Started/","source_label":"GDC access documentation","retrieved_at":"2026-09-21T12:30:59.429441Z","snippet":null,"locator":null,"confidence":"medium","reviewer":null,"reviewed_at":null,"note":"Generated by applying the repository's documented access policy to this dataset's identifiers. It is not a reviewer's account of this dataset."}]}],"analysis_examples":[],"agent_package":{"json_url":"/data/datasets/gdc-tcga-ov.json","jsonld_url":"/data/jsonld/gdc-tcga-ov.jsonld","croissant_url":"/data/croissant/gdc-tcga-ov.json","instructions_url":"/data/agent/gdc-tcga-ov.md","bundle_url":null,"mcp_resource_uri":null},"related_dataset_ids":[],"related_underexplored_ids":[],"review":{"status":"machine_only","reviewer":null,"reviewer_affiliation":null,"reviewed_at":null,"sections_reviewed":[],"open_questions":[],"notes":null},"verification":{"last_verified_at":null,"link_checks":[],"n_links_ok":0,"n_links_broken":0,"upstream_version_seen":null,"upstream_version_changed":false,"upstream_counts_seen":{},"upstream_drift":{},"notes":[]},"is_showcase":false,"completeness_score":42.9,"tags":["gdc","has-derived-annotations","idc","imaging","imaging-genomics","imaging-pathology","released","tcga"],"search_text":null}