{"id":"https://openalex.org/W4293702574","doi":"https://doi.org/10.1371/journal.pcbi.1010378","title":"WhichTF is functionally important in your open chromatin data?","display_name":"WhichTF is functionally important in your open chromatin data?","publication_year":2022,"publication_date":"2022-08-30","ids":{"openalex":"https://openalex.org/W4293702574","doi":"https://doi.org/10.1371/journal.pcbi.1010378","pmid":"https://pubmed.ncbi.nlm.nih.gov/36040971"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1010378","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010378","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010378&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010378&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003493606","display_name":"Yosuke Tanigawa","orcid":"https://orcid.org/0000-0001-9759-157X"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yosuke Tanigawa","raw_affiliation_strings":["Department of Biomedical Data Science, School of Medicine, Stanford University, Stanford, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Data Science, School of Medicine, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103927073","display_name":"Ethan S. Dyer","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ethan S. Dyer","raw_affiliation_strings":["Department of Physics and Astronomy, Johns Hopkins University, Baltimore, Maryland, United States of America","Stanford Institute for Theoretical Physics, Stanford University, Stanford, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Physics and Astronomy, Johns Hopkins University, Baltimore, Maryland, United States of America","institution_ids":["https://openalex.org/I145311948"]},{"raw_affiliation_string":"Stanford Institute for Theoretical Physics, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085525898","display_name":"Gill Bejerano","orcid":"https://orcid.org/0000-0001-5179-3635"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gill Bejerano","raw_affiliation_strings":["Department of Biomedical Data Science, School of Medicine, Stanford University, Stanford, California, United States of America","Department of Computer Science, Stanford University, Stanford, California, United States of America","Department of Developmental Biology, Stanford University, Stanford, California, United States of America","Department of Pediatrics, Stanford University School of Medicine, Stanford University, Stanford, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Data Science, School of Medicine, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Computer Science, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Developmental Biology, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Pediatrics, Stanford University School of Medicine, Stanford University, Stanford, California, United States of America","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5003493606","https://openalex.org/A5085525898","https://openalex.org/A5103927073"],"corresponding_institution_ids":["https://openalex.org/I145311948","https://openalex.org/I97018004"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":15.9699,"has_fulltext":true,"cited_by_count":167,"citation_normalized_percentile":{"value":0.99583155,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"18","issue":"8","first_page":"e1010378","last_page":"e1010378"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9995999932289124,"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"}},"topics":[{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9995999932289124,"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/T11591","display_name":"NF-\u03baB Signaling Pathways","score":0.998199999332428,"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"}},{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9968000054359436,"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/computational-biology","display_name":"Computational biology","score":0.7108166813850403},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7005624175071716},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.6538606882095337},{"id":"https://openalex.org/keywords/mesoderm","display_name":"Mesoderm","score":0.621986985206604},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5974473357200623},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5075234174728394},{"id":"https://openalex.org/keywords/cell-type","display_name":"Cell type","score":0.442889928817749},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4399508237838745},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.43316665291786194},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3767194151878357},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3334633708000183},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2862017750740051},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.23460936546325684},{"id":"https://openalex.org/keywords/embryonic-stem-cell","display_name":"Embryonic stem cell","score":0.09915965795516968}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.7108166813850403},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7005624175071716},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.6538606882095337},{"id":"https://openalex.org/C2780915607","wikidata":"https://www.wikidata.org/wiki/Q323438","display_name":"Mesoderm","level":4,"score":0.621986985206604},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5974473357200623},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5075234174728394},{"id":"https://openalex.org/C189014844","wikidata":"https://www.wikidata.org/wiki/Q189118","display_name":"Cell type","level":3,"score":0.442889928817749},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4399508237838745},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.43316665291786194},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3767194151878357},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3334633708000183},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2862017750740051},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.23460936546325684},{"id":"https://openalex.org/C145103041","wikidata":"https://www.wikidata.org/wiki/Q1151519","display_name":"Embryonic stem cell","level":3,"score":0.09915965795516968},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1010378","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010378","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010378&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:36040971","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36040971","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,"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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:27a664ade6c54705bb3f7512a9268680","is_oa":true,"landing_page_url":"https://doaj.org/article/27a664ade6c54705bb3f7512a9268680","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 18, Iss 8, p e1010378 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9426921","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9426921","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1010378","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1010378","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1010378&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.699999988079071,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G2169280053","display_name":null,"funder_award_id":"R01HG008155","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G2382536209","display_name":null,"funder_award_id":"U01MH105949","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G2720634147","display_name":null,"funder_award_id":"R01HG010140","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G287757474","display_name":null,"funder_award_id":"AG067151","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G3371734190","display_name":null,"funder_award_id":"U01MH105949","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3497591915","display_name":null,"funder_award_id":"(NIH)","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4633620166","display_name":null,"funder_award_id":"HG008155","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G4860718738","display_name":null,"funder_award_id":"MH105949","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G5446138964","display_name":null,"funder_award_id":"U01HG011762","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5840415881","display_name":null,"funder_award_id":"R01AG067151","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G6167248827","display_name":null,"funder_award_id":"R01HG01014","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G6472210253","display_name":null,"funder_award_id":"R01HG010140","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G6531216763","display_name":null,"funder_award_id":"R01HG008155","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G84274103","display_name":null,"funder_award_id":"U01HG011762","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320306164","display_name":"Simons Foundation","ror":"https://ror.org/01cmst727"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332427","display_name":"School of Medicine, Stanford University","ror":"https://ror.org/00f54p054"},{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337346","display_name":"National Institute of Mental Health","ror":"https://ror.org/04xeg9z08"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4293702574.pdf","grobid_xml":"https://content.openalex.org/works/W4293702574.grobid-xml"},"referenced_works_count":108,"referenced_works":["https://openalex.org/W590726235","https://openalex.org/W1496240740","https://openalex.org/W1507039213","https://openalex.org/W1602702667","https://openalex.org/W1834505123","https://openalex.org/W1951719616","https://openalex.org/W1964963969","https://openalex.org/W1977876541","https://openalex.org/W1977896930","https://openalex.org/W1979594866","https://openalex.org/W1986112044","https://openalex.org/W1995946981","https://openalex.org/W1997067526","https://openalex.org/W1997271589","https://openalex.org/W1999810025","https://openalex.org/W2000672459","https://openalex.org/W2014677321","https://openalex.org/W2017360056","https://openalex.org/W2029915644","https://openalex.org/W2032588195","https://openalex.org/W2036368740","https://openalex.org/W2049339208","https://openalex.org/W2060527750","https://openalex.org/W2062091760","https://openalex.org/W2075809760","https://openalex.org/W2076154138","https://openalex.org/W2088602755","https://openalex.org/W2089935065","https://openalex.org/W2102364213","https://openalex.org/W2102619694","https://openalex.org/W2103017472","https://openalex.org/W2105664416","https://openalex.org/W2107289504","https://openalex.org/W2108234281","https://openalex.org/W2114662093","https://openalex.org/W2115452562","https://openalex.org/W2116187144","https://openalex.org/W2117757143","https://openalex.org/W2123106337","https://openalex.org/W2125518385","https://openalex.org/W2125987139","https://openalex.org/W2127996002","https://openalex.org/W2128016314","https://openalex.org/W2128646124","https://openalex.org/W2129795133","https://openalex.org/W2130410032","https://openalex.org/W2130604047","https://openalex.org/W2137465688","https://openalex.org/W2143604401","https://openalex.org/W2147452955","https://openalex.org/W2152850487","https://openalex.org/W2155826575","https://openalex.org/W2157952888","https://openalex.org/W2162538050","https://openalex.org/W2168867830","https://openalex.org/W2170551349","https://openalex.org/W2171808845","https://openalex.org/W2184563578","https://openalex.org/W2187089797","https://openalex.org/W2235424824","https://openalex.org/W2259938310","https://openalex.org/W2272224600","https://openalex.org/W2280567170","https://openalex.org/W2345356016","https://openalex.org/W2396272553","https://openalex.org/W2409562298","https://openalex.org/W2409989115","https://openalex.org/W2461230718","https://openalex.org/W2486559230","https://openalex.org/W2521004108","https://openalex.org/W2527535582","https://openalex.org/W2590316543","https://openalex.org/W2595255406","https://openalex.org/W2604808360","https://openalex.org/W2607741101","https://openalex.org/W2612519453","https://openalex.org/W2627538286","https://openalex.org/W2759615793","https://openalex.org/W2767863475","https://openalex.org/W2785792383","https://openalex.org/W2803062674","https://openalex.org/W2804905734","https://openalex.org/W2900310474","https://openalex.org/W2901332105","https://openalex.org/W2950765062","https://openalex.org/W2952959400","https://openalex.org/W2952990620","https://openalex.org/W2953109251","https://openalex.org/W2967499034","https://openalex.org/W2977079874","https://openalex.org/W3007397831","https://openalex.org/W3008816049","https://openalex.org/W3110451829","https://openalex.org/W3112847930","https://openalex.org/W3126997388","https://openalex.org/W3127556601","https://openalex.org/W3151678771","https://openalex.org/W3165702706","https://openalex.org/W3201044231","https://openalex.org/W3207912190","https://openalex.org/W4213108508","https://openalex.org/W4221103824","https://openalex.org/W4223495068","https://openalex.org/W4231356616","https://openalex.org/W4231943691","https://openalex.org/W4250359879","https://openalex.org/W4292232933","https://openalex.org/W7075682736"],"related_works":["https://openalex.org/W3145419749","https://openalex.org/W3038565614","https://openalex.org/W2010571965","https://openalex.org/W4289637626","https://openalex.org/W2002709996","https://openalex.org/W4387092964","https://openalex.org/W2103471012","https://openalex.org/W2966064480","https://openalex.org/W2115810854","https://openalex.org/W4294862307"],"abstract_inverted_index":{"We":[0,100,117],"present":[1],"WhichTF,":[2],"a":[3],"computational":[4],"method":[5],"to":[6,26,56],"identify":[7,57],"functionally":[8],"important":[9],"transcription":[10],"factors":[11,71],"(TFs)":[12],"from":[13],"chromatin":[14],"accessibility":[15,32],"measurements.":[16],"To":[17,75],"rank":[18],"TFs,":[19,104],"WhichTF":[20,55,133],"applies":[21],"an":[22],"ontology-guided":[23],"functional":[24,61],"approach":[25],"compute":[27],"novel":[28,140],"enrichment":[29],"by":[30],"integrating":[31],"measurements,":[33],"high-confidence":[34],"pre-computed":[35],"conservation-aware":[36],"TF":[37],"binding":[38],"sites,":[39],"and":[40,69,89,97,111,139,152,159],"putative":[41],"gene-regulatory":[42],"models.":[43],"Comparison":[44],"with":[45,60],"prior":[46],"sheer":[47],"abundance-based":[48],"methods":[49],"reveals":[50],"the":[51,77],"unique":[52],"ability":[53],"of":[54,143],"context-specific":[58],"TFs":[59,120],"relevance,":[62],"including":[63,150],"NF-\u03baB":[64],"family":[65],"members":[66],"in":[67,72,81,93,108,113,147],"lymphocytes":[68],"GATA":[70],"cardiac":[73],"cells.":[74,99,161],"distinguish":[76],"transcriptional":[78,145],"regulatory":[79],"landscape":[80],"closely":[82],"related":[83],"samples,":[84],"we":[85],"apply":[86],"differential":[87],"analysis":[88],"demonstrate":[90],"its":[91],"utility":[92],"lymphocyte,":[94],"mesoderm":[95,109],"developmental,":[96],"disease":[98],"find":[101,119],"suggestive,":[102],"under-characterized":[103],"such":[105],"as":[106],"RUNX3":[107],"development":[110],"GLI1":[112],"systemic":[114],"lupus":[115],"erythematosus.":[116],"also":[118],"known":[121,138],"for":[122],"stress":[123],"response,":[124],"suggesting":[125],"routine":[126],"experimental":[127],"caveats":[128],"that":[129],"warrant":[130],"careful":[131],"consideration.":[132],"yields":[134],"biological":[135],"insight":[136],"into":[137],"molecular":[141],"mechanisms":[142],"TF-mediated":[144],"regulation":[146],"diverse":[148],"contexts,":[149],"human":[151],"mouse":[153],"cell":[154,156],"types,":[155],"fate":[157],"trajectories,":[158],"disease-associated":[160]},"counts_by_year":[{"year":2026,"cited_by_count":13},{"year":2025,"cited_by_count":66},{"year":2024,"cited_by_count":51},{"year":2023,"cited_by_count":35},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-16T08:26:57.006410","created_date":"2025-10-10T00:00:00"}