{"id":"https://openalex.org/W3029615469","doi":"https://doi.org/10.1200/cci.19.00111","title":"Global Alliance for Genomics and Health Meets Bioconductor: Toward Reproducible and Agile Cancer Genomics at Cloud Scale","display_name":"Global Alliance for Genomics and Health Meets Bioconductor: Toward Reproducible and Agile Cancer Genomics at Cloud Scale","publication_year":2020,"publication_date":"2020-05-26","ids":{"openalex":"https://openalex.org/W3029615469","doi":"https://doi.org/10.1200/cci.19.00111","mag":"3029615469","pmid":"https://pubmed.ncbi.nlm.nih.gov/32453635","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/7265787"},"language":"en","primary_location":{"id":"doi:10.1200/cci.19.00111","doi":"https://doi.org/10.1200/cci.19.00111","is_oa":true,"landing_page_url":"https://doi.org/10.1200/cci.19.00111","pdf_url":null,"source":{"id":"https://openalex.org/S4210181501","display_name":"JCO Clinical Cancer Informatics","issn_l":"2473-4276","issn":["2473-4276"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-20","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315671","host_organization_name":"Lippincott Williams & Wilkins","host_organization_lineage":["https://openalex.org/P4310315671","https://openalex.org/P4310318547"],"host_organization_lineage_names":["Lippincott Williams & Wilkins","Wolters Kluwer"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"JCO Clinical Cancer Informatics","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1200/cci.19.00111","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081015175","display_name":"Vincent J. Carey","orcid":"https://orcid.org/0000-0003-4046-0063","observed_orcids":["https://orcid.org/0000-0003-4046-0063"]},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I121934306","https://openalex.org/I1283280774","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Vincent J. Carey","raw_affiliation_strings":["Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063530956","display_name":"Marcel Ramos","orcid":"https://orcid.org/0000-0002-3242-0582","observed_orcids":["https://orcid.org/0000-0002-3242-0582"]},"institutions":[{"id":"https://openalex.org/I1292894508","display_name":"Roswell Park Comprehensive Cancer Center","ror":"https://ror.org/0499dwk57","country_code":"US","type":"facility","lineage":["https://openalex.org/I1292894508"]},{"id":"https://openalex.org/I174216632","display_name":"City University of New York","ror":"https://ror.org/00453a208","country_code":"US","type":"education","lineage":["https://openalex.org/I174216632"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marcel Ramos","raw_affiliation_strings":["Graduate School of Public Health and Health Policy, City University of New York, New York, NY","Roswell Park Comprehensive Cancer Center, Buffalo, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Public Health and Health Policy, City University of New York, New York, NY","institution_ids":["https://openalex.org/I174216632"]},{"raw_affiliation_string":"Roswell Park Comprehensive Cancer Center, Buffalo, NY","institution_ids":["https://openalex.org/I1292894508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111113924","display_name":"Benjamin J. Stubbs","orcid":"https://orcid.org/0009-0005-4841-6309","observed_orcids":["https://orcid.org/0009-0005-4841-6309"]},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I121934306","https://openalex.org/I1283280774","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Benjamin J. Stubbs","raw_affiliation_strings":["Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014643747","display_name":"Shweta Gopaulakrishnan","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I121934306","https://openalex.org/I1283280774","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shweta Gopaulakrishnan","raw_affiliation_strings":["Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Channing Division of Network Medicine, Brigham and Women\u2019s Hospital, Harvard Medical School, Boston, MA","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019675326","display_name":"Sehyun Oh","orcid":"https://orcid.org/0000-0002-9490-3061","observed_orcids":["https://orcid.org/0000-0002-9490-3061"]},"institutions":[{"id":"https://openalex.org/I174216632","display_name":"City University of New York","ror":"https://ror.org/00453a208","country_code":"US","type":"education","lineage":["https://openalex.org/I174216632"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sehyun Oh","raw_affiliation_strings":["Graduate School of Public Health and Health Policy, City University of New York, New York, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Public Health and Health Policy, City University of New York, New York, NY","institution_ids":["https://openalex.org/I174216632"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065168259","display_name":"Nitesh Turaga","orcid":"https://orcid.org/0000-0002-0224-9817","observed_orcids":["https://orcid.org/0000-0002-0224-9817"]},"institutions":[{"id":"https://openalex.org/I1292894508","display_name":"Roswell Park Comprehensive Cancer Center","ror":"https://ror.org/0499dwk57","country_code":"US","type":"facility","lineage":["https://openalex.org/I1292894508"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nitesh Turaga","raw_affiliation_strings":["Roswell Park Comprehensive Cancer Center, Buffalo, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roswell Park Comprehensive Cancer Center, Buffalo, NY","institution_ids":["https://openalex.org/I1292894508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052283192","display_name":"Levi Waldron","orcid":"https://orcid.org/0000-0003-2725-0694","observed_orcids":["https://orcid.org/0000-0003-2725-0694"]},"institutions":[{"id":"https://openalex.org/I174216632","display_name":"City University of New York","ror":"https://ror.org/00453a208","country_code":"US","type":"education","lineage":["https://openalex.org/I174216632"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Levi Waldron","raw_affiliation_strings":["Graduate School of Public Health and Health Policy, City University of New York, New York, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Public Health and Health Policy, City University of New York, New York, NY","institution_ids":["https://openalex.org/I174216632"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011002985","display_name":"Martin T. Morgan","orcid":"https://orcid.org/0000-0002-5874-8148","observed_orcids":["https://orcid.org/0000-0002-5874-8148"]},"institutions":[{"id":"https://openalex.org/I1292894508","display_name":"Roswell Park Comprehensive Cancer Center","ror":"https://ror.org/0499dwk57","country_code":"US","type":"facility","lineage":["https://openalex.org/I1292894508"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Martin Morgan","raw_affiliation_strings":["Roswell Park Comprehensive Cancer Center, Buffalo, NY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roswell Park Comprehensive Cancer Center, Buffalo, NY","institution_ids":["https://openalex.org/I1292894508"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5081015175"],"corresponding_institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"],"apc_list":null,"apc_paid":null,"fwci":1.2381,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.85926673,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":95},"biblio":{"volume":"4","issue":"4","first_page":"472","last_page":"479"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9824000000953674,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9824000000953674,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.00559999980032444,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.005400000140070915,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cancer-genomics","display_name":"cancer genomics","score":0.8069999814033508},{"id":"https://openalex.org/keywords/ga4gh","display_name":"GA4GH","score":0.7760000228881836},{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.9980000257492065},{"id":"https://openalex.org/keywords/tool-registry","display_name":"tool registry","score":0.8629999756813049},{"id":"https://openalex.org/keywords/dockstore","display_name":"Dockstore","score":0.7419999837875366},{"id":"https://openalex.org/keywords/terra","display_name":"Terra","score":0.722000002861023},{"id":"https://openalex.org/keywords/containerization","display_name":"containerization","score":0.6899999976158142},{"id":"https://openalex.org/keywords/reproducibility","display_name":"reproducibility","score":0.7979999780654907},{"id":"https://openalex.org/keywords/microsatellite-instability","display_name":"microsatellite instability","score":0.8980000019073486},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"cloud computing","score":0.5289999842643738}],"concepts":[{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.749725341796875},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.6912547945976257},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6696532964706421},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5965185165405273},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.49483436346054077},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.47107425332069397},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4596542716026306},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.27801400423049927},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.205771803855896},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1416291892528534},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.11951810121536255},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.11449146270751953},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1200/cci.19.00111","doi":"https://doi.org/10.1200/cci.19.00111","is_oa":true,"landing_page_url":"https://doi.org/10.1200/cci.19.00111","pdf_url":null,"source":{"id":"https://openalex.org/S4210181501","display_name":"JCO Clinical Cancer Informatics","issn_l":"2473-4276","issn":["2473-4276"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-20","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315671","host_organization_name":"Lippincott Williams & Wilkins","host_organization_lineage":["https://openalex.org/P4310315671","https://openalex.org/P4310318547"],"host_organization_lineage_names":["Lippincott Williams & Wilkins","Wolters Kluwer"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"JCO Clinical Cancer Informatics","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7265787","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7265787","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"JCO Clin Cancer Inform","raw_type":"Text"},{"id":"pmid:32453635","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32453635","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"JCO clinical cancer informatics","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1200/cci.19.00111","doi":"https://doi.org/10.1200/cci.19.00111","is_oa":true,"landing_page_url":"https://doi.org/10.1200/cci.19.00111","pdf_url":null,"source":{"id":"https://openalex.org/S4210181501","display_name":"JCO Clinical Cancer Informatics","issn_l":"2473-4276","issn":["2473-4276"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","doyens","jufo-1","ki-jl-1","medline","norway-1","poland-20","russia-white-list-1"],"host_organization":"https://openalex.org/P4310315671","host_organization_name":"Lippincott Williams & Wilkins","host_organization_lineage":["https://openalex.org/P4310315671","https://openalex.org/P4310318547"],"host_organization_lineage_names":["Lippincott Williams & Wilkins","Wolters Kluwer"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"JCO Clinical Cancer Informatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4043000042438507,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G2301218291","display_name":null,"funder_award_id":"U41-HG004059","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G2470719544","display_name":null,"funder_award_id":"R21 DK098720","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G3350024683","display_name":"Cancer Genomics: Integrative and Scalable Solutions in R/Bioconductor","funder_award_id":"U24CA180996","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G3900964860","display_name":"DIET AND INSULIN SENSITIVITY: STATISTICAL METHODS","funder_award_id":"5r21dk098720-02","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7442516968","display_name":"Accelerating Cancer Genomics with Cloud-scale Bioconductor","funder_award_id":"U01CA214846","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G8995542899","display_name":"Bioconductor: an open computing resource for genomics","funder_award_id":"P41HG004059","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G9000856914","display_name":"Expanding the AnVIL (Analysis, Visualization, and Informatics Lab-space)","funder_award_id":"U24HG010263","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G9000871705","display_name":"Bioconductor: An Open-Source, Open-Development Computing Resource for Genomics","funder_award_id":"U24HG004059","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G987903266","display_name":"Bioconductor: An Open Computing Resource for Genomics","funder_award_id":"5u41hg004059-15","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W1107917109","https://openalex.org/W1973094248","https://openalex.org/W2107564978","https://openalex.org/W2117564738","https://openalex.org/W2123830992","https://openalex.org/W2576576365","https://openalex.org/W2795941120","https://openalex.org/W2796408191","https://openalex.org/W2891260744","https://openalex.org/W2952076809","https://openalex.org/W3084492169"],"related_works":["https://openalex.org/W2765635284","https://openalex.org/W4413050483","https://openalex.org/W3083639526","https://openalex.org/W3179590146","https://openalex.org/W2898987088","https://openalex.org/W4413051606","https://openalex.org/W2025776273","https://openalex.org/W2740384655","https://openalex.org/W2741866028","https://openalex.org/W6893760568"],"abstract_inverted_index":{"PURPOSE:":[0],"Institutional":[1],"efforts":[2],"toward":[3],"the":[4,29,55,66,76,153,177,198,206],"democratization":[5],"of":[6,20,54,103,110,117,136,148,181,194,210],"cloud-scale":[7],"data":[8,185],"and":[9,34,37,60,69,83,87,90,101,122,131,138,168,173,179,186,192,208],"analysis":[10,77,95,127,147,180],"methods":[11],"for":[12,32,155,176],"cancer":[13,217],"genomics":[14],"are":[15,188],"proceeding":[16],"rapidly.":[17],"As":[18],"part":[19],"this":[21,126],"effort,":[22],"we":[23],"bridge":[24],"two":[25],"major":[26],"bioinformatic":[27],"initiatives:":[28],"Global":[30],"Alliance":[31],"Genomics":[33],"Health":[35],"(GA4GH)":[36],"Bioconductor.":[38],"METHODS:":[39],"We":[40,73],"describe":[41],"in":[42,47,140,205,216],"detail":[43],"a":[44,79,88,107],"use":[45,116,135,195],"case":[46],"pancancer":[48],"transcriptomics":[49],"conducted":[50],"by":[51],"blending":[52],"implementations":[53],"GA4GH":[56],"Workflow":[57],"Execution":[58],"Services":[59],"Tool":[61],"Registry":[62],"Service":[63],"concepts":[64],"with":[65,78,142],"Bioconductor":[67,143],"curatedTCGAData":[68],"BiocOncoTK":[70],"packages.":[71],"RESULTS:":[72],"carried":[74],"out":[75],"formally":[80],"archived":[81],"workflow":[82,123],"container":[84,164],"at":[85,92,106],"dockstore.org":[86,137],"workspace":[89],"notebook":[91],"app.terra.bio.":[93],"The":[94,190],"identified":[96],"relationships":[97],"between":[98],"microsatellite":[99],"instability":[100],"biomarkers":[102],"immune":[104],"dysregulation":[105],"finer":[108],"level":[109],"granularity":[111],"than":[112],"previously":[113],"reported.":[114],"Our":[115],"standard":[118],"approaches":[119,211],"to":[120,128,163,212],"containerization":[121],"programming":[124],"allows":[125],"be":[129,203],"replicated":[130],"extended.":[132],"CONCLUSION:":[133],"Experimental":[134],"app.terra.bio":[139],"concert":[141],"enabled":[144],"novel":[145],"statistical":[146],"large":[149],"genomic":[150,184],"projects":[151],"without":[152],"need":[154],"local":[156],"supercomputing":[157],"resources":[158],"but":[159],"involved":[160],"challenges":[161],"related":[162],"design,":[165],"script":[166],"archiving,":[167],"unit":[169],"testing.":[170],"Best":[171],"practices":[172],"cost/benefit":[174],"metrics":[175],"management":[178],"globally":[182],"federated":[183,213],"annotation":[187],"evolving.":[189],"creation":[191],"execution":[193],"cases":[196],"like":[197],"one":[199],"reported":[200],"here":[201],"will":[202],"helpful":[204],"development":[207],"comparison":[209],"data/analysis":[214],"systems":[215],"genomics.":[218]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2020-06-05T00:00:00"}