{"id":"https://openalex.org/W2034907050","doi":"https://doi.org/10.1186/s12859-015-0552-x","title":"REGULATOR: a database of metazoan transcription factors and maternal factors for developmental studies","display_name":"REGULATOR: a database of metazoan transcription factors and maternal factors for developmental studies","publication_year":2015,"publication_date":"2015-04-09","ids":{"openalex":"https://openalex.org/W2034907050","doi":"https://doi.org/10.1186/s12859-015-0552-x","mag":"2034907050","pmid":"https://pubmed.ncbi.nlm.nih.gov/25880930"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-015-0552-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0552-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0552-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0552-x","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100437038","display_name":"Kai Wang","orcid":"https://orcid.org/0000-0002-6194-0480"},"institutions":[{"id":"https://openalex.org/I98285908","display_name":"Osaka University","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Kai Wang","raw_affiliation_strings":["Department of Biological Sciences, Graduate School of Science, Osaka University, Toyonaka, Osaka, 560-0043, Japan. wangk@bio.sci.osaka-u.ac.jp","Department of Biological Sciences Graduate School of Science Osaka University Toyonaka Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Graduate School of Science, Osaka University, Toyonaka, Osaka, 560-0043, Japan. wangk@bio.sci.osaka-u.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Department of Biological Sciences Graduate School of Science Osaka University Toyonaka Japan","institution_ids":["https://openalex.org/I98285908"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5033802691","display_name":"Hiroki Nishida","orcid":"https://orcid.org/0000-0002-7249-1668"},"institutions":[{"id":"https://openalex.org/I98285908","display_name":"Osaka University","ror":"https://ror.org/035t8zc32","country_code":"JP","type":"education","lineage":["https://openalex.org/I98285908"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroki Nishida","raw_affiliation_strings":["Department of Biological Sciences, Graduate School of Science, Osaka University, Toyonaka, Osaka, 560-0043, Japan. hnishida@bio.sci.osaka-u.ac.jp","Department of Biological Sciences Graduate School of Science Osaka University Toyonaka Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Graduate School of Science, Osaka University, Toyonaka, Osaka, 560-0043, Japan. hnishida@bio.sci.osaka-u.ac.jp","institution_ids":[]},{"raw_affiliation_string":"Department of Biological Sciences Graduate School of Science Osaka University Toyonaka Japan","institution_ids":["https://openalex.org/I98285908"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100437038"],"corresponding_institution_ids":["https://openalex.org/I98285908"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.7529,"has_fulltext":true,"cited_by_count":18,"citation_normalized_percentile":{"value":0.71764004,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"16","issue":"1","first_page":"114","last_page":"114"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.47679999470710754,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.47679999470710754,"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/T10268","display_name":"Developmental Biology and Gene Regulation","score":0.14100000262260437,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0608999989926815,"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":0.741733193397522},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.7005898356437683},{"id":"https://openalex.org/keywords/cis-regulatory-module","display_name":"Cis-regulatory module","score":0.5715349316596985},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5341329574584961},{"id":"https://openalex.org/keywords/regulator","display_name":"Regulator","score":0.5212507843971252},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4904181659221649},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4348212480545044},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4211435317993164},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.34014198184013367},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.18083560466766357},{"id":"https://openalex.org/keywords/enhancer","display_name":"Enhancer","score":0.10372361540794373}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.741733193397522},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.7005898356437683},{"id":"https://openalex.org/C190796033","wikidata":"https://www.wikidata.org/wiki/Q1093165","display_name":"Cis-regulatory module","level":5,"score":0.5715349316596985},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5341329574584961},{"id":"https://openalex.org/C6929976","wikidata":"https://www.wikidata.org/wiki/Q3771881","display_name":"Regulator","level":3,"score":0.5212507843971252},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4904181659221649},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4348212480545044},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4211435317993164},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.34014198184013367},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.18083560466766357},{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.10372361540794373}],"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":"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":"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":"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":"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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018507","descriptor_name":"Gene Expression Regulation, Developmental","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018507","descriptor_name":"Gene Expression Regulation, Developmental","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018507","descriptor_name":"Gene Expression Regulation, Developmental","qualifier_ui":null,"qualifier_name":null,"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},{"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}],"locations_count":3,"locations":[{"id":"doi:10.1186/s12859-015-0552-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0552-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0552-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25880930","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25880930","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4411712","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4411712","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-015-0552-x","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-015-0552-x","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-015-0552-x","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1630437777","display_name":null,"funder_award_id":"25113518","funder_id":"https://openalex.org/F4320320912","funder_display_name":"Ministry of Education, Culture, Sports, Science and Technology"},{"id":"https://openalex.org/G6313802986","display_name":null,"funder_award_id":"22370078","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"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/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2034907050.pdf","grobid_xml":"https://content.openalex.org/works/W2034907050.grobid-xml"},"referenced_works_count":62,"referenced_works":["https://openalex.org/W179404611","https://openalex.org/W1507334568","https://openalex.org/W1513112480","https://openalex.org/W1527927437","https://openalex.org/W1978402493","https://openalex.org/W1978558779","https://openalex.org/W1980489702","https://openalex.org/W1981922164","https://openalex.org/W1988795249","https://openalex.org/W1994830470","https://openalex.org/W2002446983","https://openalex.org/W2006322387","https://openalex.org/W2006587375","https://openalex.org/W2006759504","https://openalex.org/W2011567514","https://openalex.org/W2024284737","https://openalex.org/W2024509813","https://openalex.org/W2027854381","https://openalex.org/W2028110119","https://openalex.org/W2039998866","https://openalex.org/W2046026649","https://openalex.org/W2047784091","https://openalex.org/W2056092504","https://openalex.org/W2056722854","https://openalex.org/W2067972631","https://openalex.org/W2070072684","https://openalex.org/W2070783056","https://openalex.org/W2075274380","https://openalex.org/W2075406901","https://openalex.org/W2093216568","https://openalex.org/W2094049721","https://openalex.org/W2095867585","https://openalex.org/W2097606916","https://openalex.org/W2098432760","https://openalex.org/W2100602901","https://openalex.org/W2102472304","https://openalex.org/W2104864984","https://openalex.org/W2105389823","https://openalex.org/W2105924489","https://openalex.org/W2113207456","https://openalex.org/W2114900293","https://openalex.org/W2116363471","https://openalex.org/W2118258530","https://openalex.org/W2122824894","https://openalex.org/W2124915144","https://openalex.org/W2126750365","https://openalex.org/W2130687290","https://openalex.org/W2130931930","https://openalex.org/W2131987814","https://openalex.org/W2135893370","https://openalex.org/W2136090457","https://openalex.org/W2141885858","https://openalex.org/W2145840959","https://openalex.org/W2152770371","https://openalex.org/W2159473892","https://openalex.org/W2164154631","https://openalex.org/W2164834993","https://openalex.org/W2165253681","https://openalex.org/W2170173760","https://openalex.org/W2170989872","https://openalex.org/W2171322586","https://openalex.org/W4320301318"],"related_works":["https://openalex.org/W1576021314","https://openalex.org/W1984003821","https://openalex.org/W2136219660","https://openalex.org/W2102893759","https://openalex.org/W2113617499","https://openalex.org/W584413499","https://openalex.org/W3177876754","https://openalex.org/W2041476574","https://openalex.org/W3028801441","https://openalex.org/W2021786299"],"abstract_inverted_index":{"BACKGROUND:":[0],"Genes":[1],"encoding":[2],"transcription":[3,69,101,108,121,175,222],"factors":[4,11,30,45,70,122,134],"that":[5,22],"constitute":[6],"gene-regulatory":[7],"networks":[8],"and":[9,57,79,123,150,169,195,213],"maternal":[10,81,124,133],"accumulating":[12],"in":[13,26,131,166,173,200],"egg":[14],"cytoplasm":[15],"are":[16,135,203],"two":[17],"classes":[18],"of":[19,34,54,71,100,113,129,219],"essential":[20],"genes":[21,38,56],"play":[23],"crucial":[24],"roles":[25],"developmental":[27,48,226],"processes.":[28],"Transcription":[29],"control":[31],"the":[32,52,68,85,127,140,146,163,197],"expression":[33,53],"their":[35],"downstream":[36],"target":[37],"by":[39,50],"interacting":[40],"with":[41],"cis-regulatory":[42],"elements.":[43],"Maternal":[44],"initiate":[46],"embryonic":[47],"programs":[49],"regulating":[51],"zygotic":[55],"various":[58],"other":[59,174],"events":[60],"during":[61],"early":[62],"embryogenesis.":[63],"RESULTS:":[64],"This":[65,103,161],"article":[66],"documents":[67],"77":[72],"metazoan":[73],"species":[74,218],"as":[75,77],"well":[76],"human":[78],"mouse":[80],"factors.":[82,102,109],"We":[83],"improved":[84],"previous":[86],"method":[87,104],"using":[88],"a":[89],"statistical":[90],"approach":[91],"adding":[92],"Gene":[93],"Ontology":[94],"information":[95,216],"to":[96,157,191],"Pfam":[97],"based":[98],"identification":[99],"detects":[105],"previously":[106],"un-discovered":[107],"The":[110],"novel":[111],"features":[112],"this":[114,201,206],"database":[115,168],"are:":[116],"(1)":[117],"It":[118],"includes":[119],"both":[120],"factors,":[125],"although":[126],"number":[128],"species,":[130],"which":[132,187],"listed,":[136],"is":[137,162,170],"limited":[138],"at":[139,145],"moment.":[141],"(2)":[142],"Ontological":[143],"representation":[144],"cell,":[147],"tissue,":[148],"organ,":[149],"system":[151],"levels":[152],"has":[153],"been":[154],"specially":[155],"designed":[156],"facilitate":[158],"development":[159],"studies.":[160],"unique":[164],"feature":[165],"our":[167],"not":[171],"available":[172],"factor":[176,223],"databases.":[177],"CONCLUSIONS:":[178],"A":[179],"user-friendly":[180],"web":[181,207],"interface,":[182,208],"REGULATOR":[183],"(":[184],"http://www.bioinformatics.org/regulator/":[185],"),":[186],"can":[188,210],"help":[189],"researchers":[190],"efficiently":[192],"identify,":[193],"validate,":[194],"visualize":[196],"data":[198],"analyzed":[199],"study,":[202],"provided.":[204],"Using":[205],"users":[209],"browse,":[211],"search,":[212],"download":[214],"detailed":[215],"on":[217],"interest,":[220],"genes,":[221],"families,":[224],"or":[225],"ontology":[227],"terms.":[228]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
