{"id":"https://openalex.org/W2013160881","doi":"https://doi.org/10.1371/journal.pcbi.0020047","title":"Dynamic Changes in Subgraph Preference Profiles of Crucial Transcription Factors","display_name":"Dynamic Changes in Subgraph Preference Profiles of Crucial Transcription Factors","publication_year":2006,"publication_date":"2006-05-08","ids":{"openalex":"https://openalex.org/W2013160881","doi":"https://doi.org/10.1371/journal.pcbi.0020047","mag":"2013160881","pmid":"https://pubmed.ncbi.nlm.nih.gov/16699597"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.0020047","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.0020047","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.0020047&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.0020047&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100393610","display_name":"Zhihua Zhang","orcid":"https://orcid.org/0000-0002-7706-9247"},"institutions":[{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhihua Zhang","raw_affiliation_strings":["Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101994407","display_name":"Changning Liu","orcid":"https://orcid.org/0000-0002-8914-198X"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Changning Liu","raw_affiliation_strings":["","Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038748495","display_name":"Geir Skogerb\u00f8","orcid":null},"institutions":[{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Geir Skogerb\u00f8","raw_affiliation_strings":["Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038128649","display_name":"Xiaopeng Zhu","orcid":"https://orcid.org/0000-0003-2007-9820"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaopeng Zhu","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014902392","display_name":"Hongchao Lu","orcid":"https://orcid.org/0000-0002-6740-7927"},"institutions":[{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongchao Lu","raw_affiliation_strings":["","Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100395304","display_name":"Lan Chen","orcid":"https://orcid.org/0000-0003-4426-9944"},"institutions":[{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lan Chen","raw_affiliation_strings":["","Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037084033","display_name":"Baochen Shi","orcid":null},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Baochen Shi","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007650371","display_name":"Yong Zhang","orcid":"https://orcid.org/0000-0001-6316-2734"},"institutions":[{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yong Zhang","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115602045","display_name":"Jie Wang","orcid":"https://orcid.org/0000-0002-2997-3450"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jie Wang","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080615284","display_name":"Tao Wu","orcid":"https://orcid.org/0000-0002-9859-4534"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tao Wu","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Graduate School of the Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Graduate School of the Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I19820366"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029900952","display_name":"Runsheng Chen","orcid":"https://orcid.org/0000-0001-6049-8347"},"institutions":[{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"funder","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210112540","display_name":"Institute of Biophysics","ror":"https://ror.org/01tyv8576","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210112540"]},{"id":"https://openalex.org/I4210090176","display_name":"Institute of Computing Technology","ror":"https://ror.org/0090r4d87","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210090176"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Runsheng Chen","raw_affiliation_strings":["","Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China"],"affiliations":[{"raw_affiliation_string":"","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Laboratory and National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210112540","https://openalex.org/I19820366"]},{"raw_affiliation_string":"Bioinformatics Research Group, Key Laboratory of Intelligent Information Processing, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, China","institution_ids":["https://openalex.org/I4210090176","https://openalex.org/I19820366"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5029900952"],"corresponding_institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210090176","https://openalex.org/I4210112540"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.9535,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.7236639,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":96},"biblio":{"volume":"2","issue":"5","first_page":"e47","last_page":"e47"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10497","display_name":"Fungal and yeast genetics research","score":0.9997000098228455,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9987000226974487,"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/saccharomyces-cerevisiae","display_name":"Saccharomyces cerevisiae","score":0.755433201789856},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6124785542488098},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5985257625579834},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5794745683670044},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5457417964935303},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4241352677345276},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3743521571159363},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36516523361206055},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2707899212837219}],"concepts":[{"id":"https://openalex.org/C2777576037","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Saccharomyces cerevisiae","level":3,"score":0.755433201789856},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6124785542488098},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5985257625579834},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5794745683670044},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5457417964935303},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4241352677345276},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3743521571159363},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36516523361206055},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2707899212837219}],"mesh":[{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002453","descriptor_name":"Cell Cycle","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","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":"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":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015966","descriptor_name":"Gene Expression Regulation, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015966","descriptor_name":"Gene Expression Regulation, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015966","descriptor_name":"Gene Expression Regulation, Fungal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.0020047","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.0020047","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.0020047&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:16699597","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16699597","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.487.1520","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.487.1520","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.ibp.ac.cn/c/sites/nlb/11/2006/03.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:4a4203f05bf1482bb7c7292b26dee8fe","is_oa":true,"landing_page_url":"https://doaj.org/article/4a4203f05bf1482bb7c7292b26dee8fe","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 2, Iss 5, p e47 (2006)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2622029","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC1458966","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:figshare.com:article/152964","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Dynamic_Changes_in_Subgraph_Preference_Profiles_of_Crucial_Transcription_Factors/152964","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:1458966","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1458966","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.0020047","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.0020047","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.0020047&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6299999952316284,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2013160881.pdf","grobid_xml":"https://content.openalex.org/works/W2013160881.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1536942780","https://openalex.org/W1599207601","https://openalex.org/W1797459856","https://openalex.org/W1977943300","https://openalex.org/W1985032743","https://openalex.org/W1988461381","https://openalex.org/W1995991050","https://openalex.org/W2002174243","https://openalex.org/W2006038621","https://openalex.org/W2031869443","https://openalex.org/W2033488646","https://openalex.org/W2038012561","https://openalex.org/W2044980846","https://openalex.org/W2058161613","https://openalex.org/W2069898971","https://openalex.org/W2070672503","https://openalex.org/W2077159940","https://openalex.org/W2103017472","https://openalex.org/W2109110326","https://openalex.org/W2109473266","https://openalex.org/W2110699703","https://openalex.org/W2123880844","https://openalex.org/W2124533460","https://openalex.org/W2126602684","https://openalex.org/W2126669894","https://openalex.org/W2131706188","https://openalex.org/W2131984349","https://openalex.org/W2152750766","https://openalex.org/W2153624566","https://openalex.org/W2160875291","https://openalex.org/W2163480486","https://openalex.org/W2169528473","https://openalex.org/W2898709021"],"related_works":["https://openalex.org/W2010571965","https://openalex.org/W3128451840","https://openalex.org/W2002709996","https://openalex.org/W4387092964","https://openalex.org/W2103471012","https://openalex.org/W2966064480","https://openalex.org/W2380236774","https://openalex.org/W2107149076","https://openalex.org/W2115810854","https://openalex.org/W2277277196"],"abstract_inverted_index":{"Transcription":[0],"factors":[1],"with":[2],"a":[3,20,93,126,134,144,162],"large":[4],"number":[5],"of":[6,15,19,37,45,49,81,89,120,167],"target":[7],"genes--transcription":[8],"hub(s),":[9],"or":[10,114],"THub(s)--are":[11],"usually":[12],"crucial":[13],"components":[14],"the":[16,23,30,53,90,112,139,147,151,168,173],"regulatory":[17,47,76,121,140,178],"system":[18],"cell,":[21],"and":[22,65,95,170,176],"different":[24,62,74],"patterns":[25,48],"through":[26],"which":[27,150],"they":[28],"transfer":[29],"transcriptional":[31,57],"signal":[32],"to":[33],"downstream":[34,80],"cascades":[35],"are":[36,100],"great":[38],"interest.":[39],"By":[40],"profiling":[41],"normalized":[42],"abundances":[43,79],"(A(N))":[44],"basic":[46,75],"individual":[50,82],"THubs":[51,83],"in":[52,128,136,146],"yeast":[54],"Saccharomyces":[55],"cerevisiae":[56],"regulation":[58],"network":[59,91],"under":[60],"five":[61],"cellular":[63,113],"states":[64],"environmental":[66,115],"conditions,":[67],"we":[68],"have":[69],"investigated":[70],"their":[71],"preferences":[72,108,123],"for":[73,165],"patterns.":[77,179],"Subgraph-normalized":[78],"often":[84],"differ":[85],"significantly":[86],"from":[87],"that":[88,125],"as":[92],"whole,":[94],"conversely,":[96],"certain":[97],"over-represented":[98],"subgraphs":[99],"not":[101,131],"preferred":[102],"by":[103,138,149],"any":[104],"THub.":[105],"The":[106,155],"THub":[107,156],"changed":[109],"substantially":[110],"when":[111],"conditions":[116,129],"changed.":[117],"This":[118],"switching":[119],"pattern":[122],"suggests":[124],"change":[127,135,145],"does":[130],"only":[132],"elicit":[133],"response":[137,152],"network,":[141],"but":[142],"also":[143],"mechanisms":[148],"is":[153],"mediated.":[154],"subgraph":[157],"preference":[158],"profile":[159],"thus":[160],"provides":[161],"novel":[163],"tool":[164],"description":[166],"structure":[169],"organization":[171],"between":[172],"large-scale":[174],"exponents":[175],"local":[177]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
