{"id":"https://openalex.org/W2104302872","doi":"https://doi.org/10.1093/database/bat062","title":"Gene Ontology annotation of sequence-specific DNA binding transcription factors: setting the stage for a large-scale curation effort","display_name":"Gene Ontology annotation of sequence-specific DNA binding transcription factors: setting the stage for a large-scale curation effort","publication_year":2013,"publication_date":"2013-08-27","ids":{"openalex":"https://openalex.org/W2104302872","doi":"https://doi.org/10.1093/database/bat062","mag":"2104302872","pmid":"https://pubmed.ncbi.nlm.nih.gov/23981286"},"language":"en","primary_location":{"id":"doi:10.1093/database/bat062","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bat062","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bat062/16734111/bat062.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bat062/16734111/bat062.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085297755","display_name":"Sushil Tripathi","orcid":"https://orcid.org/0000-0003-0032-3574"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"S. Tripathi","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, NTNU, N-7489 Trondheim, Norway","Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, NTNU, N-7489 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028991602","display_name":"Karen Christie","orcid":"https://orcid.org/0000-0001-5501-853X"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]},{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]}],"countries":["NO","US"],"is_corresponding":false,"raw_author_name":"K. R. Christie","raw_affiliation_strings":["Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","institution_ids":["https://openalex.org/I4210115256"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056119656","display_name":"Rama Balakrishnan","orcid":"https://orcid.org/0000-0003-2468-9933"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]},{"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":["NO","US"],"is_corresponding":false,"raw_author_name":"R. Balakrishnan","raw_affiliation_strings":["Department of Genetics, Stanford University, Stanford, CA, 94305-5120, USA,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Stanford University, Stanford, CA, 94305-5120, USA,","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017108144","display_name":"Rachael P. Huntley","orcid":"https://orcid.org/0000-0001-6718-3559"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]},{"id":"https://openalex.org/I2802476451","display_name":"Wellcome Sanger Institute","ror":"https://ror.org/05cy4wa09","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2802476451","https://openalex.org/I87048295"]}],"countries":["GB","NO"],"is_corresponding":false,"raw_author_name":"R. Huntley","raw_affiliation_strings":["UniProt, EMBL-EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UniProt, EMBL-EBI, The Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK,","institution_ids":["https://openalex.org/I1303153112","https://openalex.org/I2802476451"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029292423","display_name":"David P. Hill","orcid":"https://orcid.org/0000-0001-7476-6306"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]},{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]}],"countries":["NO","US"],"is_corresponding":false,"raw_author_name":"D. P. Hill","raw_affiliation_strings":["Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","institution_ids":["https://openalex.org/I4210115256"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087163244","display_name":"Liv Thommesen","orcid":null},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"L. Thommesen","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489 Trondheim, Norway,","Department of Technology, Sr-Trndelag University College, N-7004 Trondheim, Norway and","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489 Trondheim, Norway,","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Technology, Sr-Trndelag University College, N-7004 Trondheim, Norway and","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016349593","display_name":"Judith A. Blake","orcid":"https://orcid.org/0000-0001-8522-334X"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]},{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]}],"countries":["NO","US"],"is_corresponding":false,"raw_author_name":"J. A. Blake","raw_affiliation_strings":["Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, ME, USA,","institution_ids":["https://openalex.org/I4210115256"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077915624","display_name":"Martin Kuiper","orcid":"https://orcid.org/0000-0002-1171-9876"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"M. Kuiper","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491 Trondheim, Norway","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491 Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084054353","display_name":"Astrid L\u00e6greid","orcid":"https://orcid.org/0000-0002-3941-4257"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"A. Laegreid","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489 Trondheim, Norway,","Norwegian University of Science and Technology, Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489 Trondheim, Norway,","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Norwegian University of Science and Technology, Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":1.9258,"has_fulltext":true,"cited_by_count":61,"citation_normalized_percentile":{"value":0.86014899,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"2013","issue":"0","first_page":"bat062","last_page":"bat062"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9991999864578247,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9988999962806702,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5803824663162231},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5456994771957397},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.5322824716567993},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5182676315307617},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.47362345457077026},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4535336494445801},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.42327505350112915},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3843984007835388},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3371559977531433},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3173977732658386},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.18753835558891296},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.17942744493484497}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5803824663162231},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5456994771957397},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.5322824716567993},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5182676315307617},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.47362345457077026},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4535336494445801},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42327505350112915},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3843984007835388},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3371559977531433},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3173977732658386},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.18753835558891296},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.17942744493484497},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004268","descriptor_name":"DNA-Binding Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":"D012319","descriptor_name":"RNA Polymerase II","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012319","descriptor_name":"RNA Polymerase II","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012319","descriptor_name":"RNA Polymerase II","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017930","descriptor_name":"Genes, Reporter","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017930","descriptor_name":"Genes, Reporter","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017930","descriptor_name":"Genes, Reporter","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},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1093/database/bat062","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bat062","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bat062/16734111/bat062.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:23981286","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23981286","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:brage.bibsys.no:11250/245409","is_oa":true,"landing_page_url":"http://hdl.handle.net/11250/245409","pdf_url":null,"source":{"id":"https://openalex.org/S4306401716","display_name":"Duo Research Archive (University of Oslo)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I184942183","host_organization_name":"University of Oslo","host_organization_lineage":["https://openalex.org/I184942183"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"1-12","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:1458831","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/1458831/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (ARTN bat) (2013)","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2745146","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC3753819","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"","raw_type":"Text"},{"id":"pmh:oai:mouseion.jax.org:stfb2013-1144","is_oa":false,"landing_page_url":"https://mouseion.jax.org/stfb2013/144","pdf_url":null,"source":{"id":"https://openalex.org/S4377196421","display_name":"The Mouseion at the JAXlibrary (Jackson Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210115256","host_organization_name":"Jackson Laboratory","host_organization_lineage":["https://openalex.org/I4210115256"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Research 2013","raw_type":"text"},{"id":"pmh:oai:ntnuopen.ntnu.no:11250/2624810","is_oa":true,"landing_page_url":"http://hdl.handle.net/11250/2624810","pdf_url":null,"source":{"id":"https://openalex.org/S4306401716","display_name":"Duo Research Archive (University of Oslo)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I184942183","host_organization_name":"University of Oslo","host_organization_lineage":["https://openalex.org/I184942183"],"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":"12","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3753819","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3753819","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,"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":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/bat062","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bat062","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bat062/16734111/bat062.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1819449706","display_name":null,"funder_award_id":"U41HG002273","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G2820513190","display_name":null,"funder_award_id":"U41 HG002273","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G3401731667","display_name":null,"funder_award_id":"U41HG002273","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4351133612","display_name":null,"funder_award_id":"HG 002273","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320310758","display_name":"Kreftforeningen","ror":"https://ror.org/01925vb10"},{"id":"https://openalex.org/F4320311040","display_name":"Norges Teknisk-Naturvitenskapelige Universitet","ror":"https://ror.org/05xg72x27"},{"id":"https://openalex.org/F4320322752","display_name":"Helse Midt-Norge","ror":"https://ror.org/04t838f48"},{"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"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104302872.pdf","grobid_xml":"https://content.openalex.org/works/W2104302872.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1566952502","https://openalex.org/W1595990218","https://openalex.org/W1982168843","https://openalex.org/W2006933206","https://openalex.org/W2008051478","https://openalex.org/W2043748764","https://openalex.org/W2044514479","https://openalex.org/W2054835199","https://openalex.org/W2061017626","https://openalex.org/W2064210252","https://openalex.org/W2068577315","https://openalex.org/W2081146141","https://openalex.org/W2084620487","https://openalex.org/W2098412979","https://openalex.org/W2101791034","https://openalex.org/W2105389823","https://openalex.org/W2107580398","https://openalex.org/W2111164126","https://openalex.org/W2127057035","https://openalex.org/W2135229538","https://openalex.org/W2138974722","https://openalex.org/W2139488778","https://openalex.org/W2141221032","https://openalex.org/W2147372875","https://openalex.org/W2150557879","https://openalex.org/W2151659911","https://openalex.org/W2165253681","https://openalex.org/W2167241965","https://openalex.org/W2167996728","https://openalex.org/W2168230240","https://openalex.org/W2171650392","https://openalex.org/W2999820612"],"related_works":["https://openalex.org/W1981780420","https://openalex.org/W2182707996","https://openalex.org/W45233828","https://openalex.org/W2964988449","https://openalex.org/W188202134","https://openalex.org/W2397952901","https://openalex.org/W2029380707","https://openalex.org/W4255934811","https://openalex.org/W2465382974","https://openalex.org/W2794341036"],"abstract_inverted_index":{"Transcription":[0],"factors":[1,29,79,102],"control":[2],"which":[3,57],"information":[4,26,169],"in":[5,15,45,86,127,146,154],"a":[6,54,59,116],"genome":[7],"becomes":[8],"transcribed":[9],"to":[10,73,105],"produce":[11],"RNAs":[12],"that":[13,142],"function":[14],"the":[16,64,69,121,128,133,155,172],"biological":[17],"systems":[18],"of":[19,130,136,161],"cells":[20],"and":[21,24,91,108,139],"organisms.":[22],"Reliable":[23],"comprehensive":[25],"about":[27],"transcription":[28,38,78,101],"is":[30,103],"invaluable":[31],"for":[32,53,62,93,171],"large-scale":[33],"network-based":[34],"studies.":[35],"However,":[36],"existing":[37],"factor":[39],"knowledge":[40],"bases":[41],"are":[42,125,151],"still":[43],"lacking":[44],"well-documented":[46],"functional":[47],"information.":[48],"Here,":[49],"we":[50,124],"provide":[51],"guidelines":[52],"curation":[55],"strategy,":[56],"constitutes":[58],"robust":[60],"framework":[61],"using":[63],"controlled":[65],"vocabularies":[66],"defined":[67],"by":[68],"Gene":[70,167],"Ontology":[71],"Consortium":[72],"annotate":[74],"specific":[75,95],"DNA":[76,96],"binding":[77,97],"(DbTFs)":[80],"based":[81],"on":[82],"experimental":[83,113],"evidence":[84,110],"reported":[85],"literature.":[87],"Our":[88],"standardized":[89],"protocol":[90],"workflow":[92],"annotating":[94,132],"RNA":[98],"polymerase":[99],"II":[100],"designed":[104],"document":[106],"high-quality":[107],"decisive":[109],"from":[111],"valid":[112],"methods.":[114],"Within":[115],"collaborative":[117],"biocuration":[118],"effort":[119],"involving":[120],"user":[122],"community,":[123],"now":[126],"process":[129],"exhaustively":[131],"full":[134],"repertoire":[135],"human,":[137],"mouse":[138],"rat":[140],"proteins":[141],"qualify":[143],"as":[144,147,149],"DbTFs":[145],"much":[148],"they":[150],"experimentally":[152],"documented":[153],"biomedical":[156],"literature":[157],"today.":[158],"The":[159],"completion":[160],"this":[162],"task":[163],"will":[164],"significantly":[165],"enrich":[166],"Ontology-based":[168],"resources":[170],"research":[173],"community.":[174],"Database":[175],"URL:":[176],"www.tfcheckpoint.org.":[177]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":1}],"updated_date":"2026-07-19T07:52:34.831488","created_date":"2025-10-10T00:00:00"}
