{"id":"https://openalex.org/W2101804908","doi":"https://doi.org/10.1093/nar/gkq1112","title":"Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation","display_name":"Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation","publication_year":2010,"publication_date":"2010-11-12","ids":{"openalex":"https://openalex.org/W2101804908","doi":"https://doi.org/10.1093/nar/gkq1112","mag":"2101804908","pmid":"https://pubmed.ncbi.nlm.nih.gov/21075797"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkq1112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq1112","pdf_url":"https://academic.oup.com/nar/article-pdf/39/suppl_1/D856/7630383/gkq1112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","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/nar/article-pdf/39/suppl_1/D856/7630383/gkq1112.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051284054","display_name":"Hideya Kawaji","orcid":"https://orcid.org/0000-0002-0575-0308"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["AU","JP"],"is_corresponding":true,"raw_author_name":"H. Kawaji","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa 230-0045, Japan. kawaji@gsc.riken.jp","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa 230-0045, Japan. kawaji@gsc.riken.jp","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091397390","display_name":"Jessica Severin","orcid":"https://orcid.org/0000-0003-1274-208X"},"institutions":[{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]},{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"J. Severin","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038594088","display_name":"Marina Lizio","orcid":"https://orcid.org/0000-0001-7337-7325"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"M. Lizio","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066740737","display_name":"Alistair R. R. Forrest","orcid":"https://orcid.org/0000-0003-4543-1675"},"institutions":[{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]},{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"A. R. R. Forrest","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017960972","display_name":"Erik van Nimwegen","orcid":"https://orcid.org/0000-0001-6338-1312"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I1850255","display_name":"University of Basel","ror":"https://ror.org/02s6k3f65","country_code":"CH","type":"education","lineage":["https://openalex.org/I1850255"]},{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU","CH"],"is_corresponding":false,"raw_author_name":"E. van Nimwegen","raw_affiliation_strings":["Biozentrum, University of Basel,","Swiss Institute of Bioinformatics, Klingelbergstrasse 50-70, 4056 Basel, Switzerland,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"Biozentrum, University of Basel,","institution_ids":["https://openalex.org/I1850255"]},{"raw_affiliation_string":"Swiss Institute of Bioinformatics, Klingelbergstrasse 50-70, 4056 Basel, Switzerland,","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053584251","display_name":"Michael Rehli","orcid":"https://orcid.org/0000-0003-3992-932X"},"institutions":[{"id":"https://openalex.org/I3129555431","display_name":"University Hospital Regensburg","ror":"https://ror.org/01226dv09","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I3129555431"]},{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU","DE"],"is_corresponding":false,"raw_author_name":"M. Rehli","raw_affiliation_strings":["Department of Hematology, University Hospital Regensburg, Franz-Josef-Strauss-Allee 11, 93053 Regensburg, Germany,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"Department of Hematology, University Hospital Regensburg, Franz-Josef-Strauss-Allee 11, 93053 Regensburg, Germany,","institution_ids":["https://openalex.org/I3129555431"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029662334","display_name":"Kate Schroder","orcid":"https://orcid.org/0000-0001-9261-3805"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I97565354","display_name":"University of Lausanne","ror":"https://ror.org/019whta54","country_code":"CH","type":"education","lineage":["https://openalex.org/I97565354"]}],"countries":["AU","CH"],"is_corresponding":false,"raw_author_name":"K. Schroder","raw_affiliation_strings":["Department of Biochemistry, the University of Lausanne, Chemin des Boveresses 155, CH-1066 Epalinges, Switzerland and","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, the University of Lausanne, Chemin des Boveresses 155, CH-1066 Epalinges, Switzerland and","institution_ids":["https://openalex.org/I97565354"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057306266","display_name":"Katharine M. Irvine","orcid":"https://orcid.org/0000-0002-6716-1605"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"K. Irvine","raw_affiliation_strings":["Institute for Molecular Bioscience, University of Queensland, Brisbane St Lucia, QLD 4072, Australia","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"Institute for Molecular Bioscience, University of Queensland, Brisbane St Lucia, QLD 4072, Australia","institution_ids":["https://openalex.org/I165143802"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057947442","display_name":"Hidekazu Suzuki","orcid":"https://orcid.org/0000-0002-9859-0699"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"H. Suzuki","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072131150","display_name":"Piero Carninci","orcid":"https://orcid.org/0000-0001-7202-7243"},"institutions":[{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]},{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"P. Carninci","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051775367","display_name":"Yoshihide Hayashizaki","orcid":"https://orcid.org/0000-0002-8621-3271"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"Y. Hayashizaki","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5082300031","display_name":"Carsten O. Daub","orcid":"https://orcid.org/0000-0002-3295-8729"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["AU","JP"],"is_corresponding":false,"raw_author_name":"C. O. Daub","raw_affiliation_strings":["RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","University of Queensland, Brisbane, Australia"],"affiliations":[{"raw_affiliation_string":"RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan,","institution_ids":["https://openalex.org/I4210150921"]},{"raw_affiliation_string":"University of Queensland, Brisbane, Australia","institution_ids":["https://openalex.org/I165143802"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5051284054"],"corresponding_institution_ids":["https://openalex.org/I165143802","https://openalex.org/I4210150921"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.1537,"has_fulltext":true,"cited_by_count":54,"citation_normalized_percentile":{"value":0.8791267,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"39","issue":"Database","first_page":"D856","last_page":"D860"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998000264167786,"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"}},"topics":[{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998000264167786,"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/T11482","display_name":"RNA modifications and cancer","score":0.9977999925613403,"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":0.9926999807357788,"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/biology","display_name":"Biology","score":0.834897518157959},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6467704772949219},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5596092343330383},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.5288696885108948},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.5246613025665283},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5052133202552795},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.47083282470703125},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.4699573516845703},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.45836007595062256},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.457610547542572},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4546405076980591},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4527207016944885},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.42143023014068604},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.4121946096420288}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.834897518157959},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6467704772949219},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5596092343330383},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.5288696885108948},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.5246613025665283},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5052133202552795},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.47083282470703125},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.4699573516845703},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.45836007595062256},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.457610547542572},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4546405076980591},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4527207016944885},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.42143023014068604},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.4121946096420288}],"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":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002454","descriptor_name":"Cell Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","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":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":"D023281","descriptor_name":"Genomics","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":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","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":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","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":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1093/nar/gkq1112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq1112","pdf_url":"https://academic.oup.com/nar/article-pdf/39/suppl_1/D856/7630383/gkq1112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:21075797","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21075797","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:serval.unil.ch:BIB_41C692308C7B","is_oa":true,"landing_page_url":"https://serval.unil.ch/notice/serval:BIB_41C692308C7B","pdf_url":null,"source":{"id":"https://openalex.org/S4306401797","display_name":"SERVAL (Universit\u00e9 de Lausanne)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210093590","host_organization_name":"Swiss School of Archaeology in Greece","host_organization_lineage":["https://openalex.org/I4210093590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research, vol. 39, no. Database issue, pp. D856-D860","raw_type":"info:eu-repo/semantics/submittedVersion"},{"id":"pmh:oai:edoc.unibas.ch:18818","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306401836","display_name":"edoc (University of Basel)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1850255","host_organization_name":"University of Basel","host_organization_lineage":["https://openalex.org/I1850255"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:epub.uni-regensburg.de:65428","is_oa":false,"landing_page_url":"http://orcid.org/0000-0002-0575-0308>,","pdf_url":null,"source":{"id":"https://openalex.org/S4306401229","display_name":"University of Regensburg Publication Server (University of Regensburg)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I60668342","host_organization_name":"University of Regensburg","host_organization_lineage":["https://openalex.org/I60668342"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"NonPeerReviewed"},{"id":"pmh:oai:iris.unil.ch:iris/123247","is_oa":true,"landing_page_url":"https://iris.unil.ch/handle/iris/123247","pdf_url":"https://iris.unil.ch/bitstreams/e80ecede-bf84-493c-a62d-79fffc1c8b3d/download","source":{"id":"https://openalex.org/S7407055444","display_name":"IRIS","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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":null,"raw_type":"journal article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3013704","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3013704","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkq1112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq1112","pdf_url":"https://academic.oup.com/nar/article-pdf/39/suppl_1/D856/7630383/gkq1112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G12401395","display_name":null,"funder_award_id":"Technology","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"},{"id":"https://openalex.org/G7599130655","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"},{"id":"https://openalex.org/G8044579487","display_name":null,"funder_award_id":"Japan","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320320912","display_name":"Ministry of Education, Culture, Sports, Science and Technology","ror":"https://ror.org/048rj2z13"},{"id":"https://openalex.org/F4320335125","display_name":"RIKEN","ror":"https://ror.org/01sjwvz98"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2101804908.pdf","grobid_xml":"https://content.openalex.org/works/W2101804908.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W1541937812","https://openalex.org/W1599437019","https://openalex.org/W1686333409","https://openalex.org/W1898862743","https://openalex.org/W1965100590","https://openalex.org/W1973831834","https://openalex.org/W1976209715","https://openalex.org/W1985457007","https://openalex.org/W1986234964","https://openalex.org/W1990525219","https://openalex.org/W2006821612","https://openalex.org/W2007257715","https://openalex.org/W2007471735","https://openalex.org/W2007771322","https://openalex.org/W2016240370","https://openalex.org/W2043349549","https://openalex.org/W2047285578","https://openalex.org/W2049660571","https://openalex.org/W2057568687","https://openalex.org/W2057692691","https://openalex.org/W2062238480","https://openalex.org/W2099468911","https://openalex.org/W2102304447","https://openalex.org/W2102920878","https://openalex.org/W2105197182","https://openalex.org/W2108671185","https://openalex.org/W2109389325","https://openalex.org/W2114703458","https://openalex.org/W2117202466","https://openalex.org/W2127310510","https://openalex.org/W2128114769","https://openalex.org/W2129301079","https://openalex.org/W2130085763","https://openalex.org/W2130542009","https://openalex.org/W2142665520","https://openalex.org/W2145477956","https://openalex.org/W2145483178","https://openalex.org/W2145803684","https://openalex.org/W2146771296","https://openalex.org/W2147740890","https://openalex.org/W2148592476","https://openalex.org/W2153392439","https://openalex.org/W2158148192","https://openalex.org/W2158304452","https://openalex.org/W2160379721","https://openalex.org/W2168783124","https://openalex.org/W2740984310","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2901823680","https://openalex.org/W2059565715","https://openalex.org/W2069695727","https://openalex.org/W1996185163","https://openalex.org/W1999129612","https://openalex.org/W2116418175","https://openalex.org/W2009940763","https://openalex.org/W2084813257","https://openalex.org/W2126804125","https://openalex.org/W2946410450"],"abstract_inverted_index":{"The":[0,38],"international":[1],"Functional":[2],"Annotation":[3],"Of":[4],"the":[5,17,30,63,72,95,105,180,204,210],"Mammalian":[6],"Genomes":[7],"4":[8],"(FANTOM4)":[9],"research":[10],"collaboration":[11],"set":[12,189],"out":[13],"to":[14,25,57,135],"better":[15],"understand":[16],"transcriptional":[18],"network":[19],"that":[20],"regulates":[21],"macrophage":[22],"differentiation":[23,101],"and":[24,40,86,91,123,130,151,157,197,206],"uncover":[26],"novel":[27],"components":[28],"of":[29,35,46,65,104,139,190],"transcriptome":[31],"employing":[32],"a":[33,54,100,114,187],"series":[34],"high-throughput":[36],"experiments.":[37],"primary":[39],"unique":[41],"technique":[42],"is":[43],"cap":[44],"analysis":[45,192],"gene":[47,66,79],"expression":[48,80,126],"(CAGE),":[49],"sequencing":[50],"mRNA":[51],"5'-ends":[52],"with":[53,133,154,170],"second-generation":[55],"sequencer":[56],"quantify":[58],"promoter":[59],"activities":[60],"even":[61],"in":[62,99,152,160,173],"absence":[64],"annotation.":[67],"Additional":[68],"genome-wide":[69],"experiments":[70,85,96],"complement":[71],"setup":[73],"including":[74,194],"short":[75],"RNA":[76],"sequencing,":[77],"microarray":[78],"profiling":[81],"on":[82],"large-scale":[83,115],"perturbation":[84],"ChIP-chip":[87],"for":[88,179],"epigenetic":[89],"marks":[90],"transcription":[92,121,142],"factors.":[93,143],"All":[94],"are":[97,158],"performed":[98,113],"time":[102],"course":[103],"THP-1":[106],"human":[107,129],"leukemic":[108],"cell":[109],"line.":[110],"Furthermore,":[111],"we":[112,185,202],"mammalian":[116],"two-hybrid":[117],"(M2H)":[118],"assay":[119],"between":[120],"factors":[122],"monitored":[124],"their":[125],"profile":[127],"across":[128],"mouse":[131],"tissues":[132],"qRT-PCR":[134],"address":[136],"combinatorial":[137],"effects":[138],"regulation":[140],"by":[141],"These":[144],"interdependent":[145],"data":[146,168],"have":[147],"been":[148],"analyzed":[149],"individually":[150],"combination":[153],"each":[155],"other":[156],"published":[159,195],"related":[161],"but":[162],"distinct":[163],"papers.":[164],"We":[165],"provide":[166],"all":[167],"together":[169],"systematic":[171],"annotation":[172],"an":[174],"integrated":[175],"view":[176],"as":[177],"resource":[178,205],"scientific":[181],"community":[182],"(http://fantom.gsc.riken.jp/4/).":[183],"Additionally,":[184],"assembled":[186],"rich":[188],"derived":[191],"results":[193],"predicted":[196],"validated":[198],"regulatory":[199],"interactions.":[200],"Here":[201],"introduce":[203],"its":[207],"update":[208],"after":[209],"initial":[211],"release.":[212]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":6}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
