{"id":"https://openalex.org/W2101930552","doi":"https://doi.org/10.1186/1471-2105-11-s1-s8","title":"Knowledge-based analysis of microarrays for the discovery of transcriptional regulation relationships","display_name":"Knowledge-based analysis of microarrays for the discovery of transcriptional regulation relationships","publication_year":2010,"publication_date":"2010-01-01","ids":{"openalex":"https://openalex.org/W2101930552","doi":"https://doi.org/10.1186/1471-2105-11-s1-s8","mag":"2101930552","pmid":"https://pubmed.ncbi.nlm.nih.gov/20122245"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-s1-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s1-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S1-S8","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/10.1186/1471-2105-11-S1-S8","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069534195","display_name":"Junhee Seok","orcid":"https://orcid.org/0000-0002-6475-8457"},"institutions":[{"id":"https://openalex.org/I4210137306","display_name":"Stanford Medicine","ror":"https://ror.org/03mtd9a03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Junhee Seok","raw_affiliation_strings":["Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA. jseok@stanford.edu","Department of Electrical Engineering, Stanford University, Stanford, USA","Stanford Genome Technology Center, Palo Alto, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA. jseok@stanford.edu","institution_ids":["https://openalex.org/I4210137306"]},{"raw_affiliation_string":"Department of Electrical Engineering, Stanford University, Stanford, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford Genome Technology Center, Palo Alto, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088055614","display_name":"Amit Kaushal","orcid":"https://orcid.org/0000-0003-0831-4365"},"institutions":[{"id":"https://openalex.org/I4210133866","display_name":"Second Genome (United States)","ror":"https://ror.org/03mnpq162","country_code":"US","type":"company","lineage":["https://openalex.org/I4210133866"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Amit Kaushal","raw_affiliation_strings":["Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","Stanford Genome Technology Center, Palo Alto, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","institution_ids":["https://openalex.org/I4210133866"]},{"raw_affiliation_string":"Stanford Genome Technology Center, Palo Alto, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104349392","display_name":"Ronald Davis","orcid":null},"institutions":[{"id":"https://openalex.org/I4210133866","display_name":"Second Genome (United States)","ror":"https://ror.org/03mnpq162","country_code":"US","type":"company","lineage":["https://openalex.org/I4210133866"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ronald W Davis","raw_affiliation_strings":["Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","Stanford Genome Technology Center, Palo Alto, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","institution_ids":["https://openalex.org/I4210133866"]},{"raw_affiliation_string":"Stanford Genome Technology Center, Palo Alto, USA","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017701213","display_name":"Wenzhong Xiao","orcid":"https://orcid.org/0000-0003-4944-6380"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I4210087915","display_name":"Massachusetts General Hospital","ror":"https://ror.org/002pd6e78","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210087915","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I4210133866","display_name":"Second Genome (United States)","ror":"https://ror.org/03mnpq162","country_code":"US","type":"company","lineage":["https://openalex.org/I4210133866"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Wenzhong Xiao","raw_affiliation_strings":["Massachusetts General Hospital, Harvard Medical School, 55 Fruit Street, Boston, Massachusetts, 02114, USA","Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","Massachusetts General Hospital, Harvard Medical School, Boston, USA","Stanford Genome Technology Center, Palo Alto, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Massachusetts General Hospital, Harvard Medical School, 55 Fruit Street, Boston, Massachusetts, 02114, USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I4210087915"]},{"raw_affiliation_string":"Stanford Genome Technology Center, 955 California Avenue, Palo Alto, California, 94305, USA","institution_ids":["https://openalex.org/I4210133866"]},{"raw_affiliation_string":"Massachusetts General Hospital, Harvard Medical School, Boston, USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I4210087915"]},{"raw_affiliation_string":"Stanford Genome Technology Center, Palo Alto, USA","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5017701213","https://openalex.org/A5069534195"],"corresponding_institution_ids":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210133866","https://openalex.org/I4210137306","https://openalex.org/I97018004"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.8716,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.72111467,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"11","issue":"S1","first_page":"S8","last_page":"S8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.6819999814033508,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.6819999814033508,"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/T10885","display_name":"Gene expression and cancer classification","score":0.18379999697208405,"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":0.054499998688697815,"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/dna-microarray","display_name":"DNA microarray","score":0.7160801887512207},{"id":"https://openalex.org/keywords/microarray-databases","display_name":"Microarray databases","score":0.5961636304855347},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.5661042928695679},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5659606456756592},{"id":"https://openalex.org/keywords/gene-chip-analysis","display_name":"Gene chip analysis","score":0.4560243785381317},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4416360855102539},{"id":"https://openalex.org/keywords/microarray","display_name":"Microarray","score":0.42644545435905457},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4195738732814789},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4030642509460449},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.38575196266174316},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3653821647167206},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2893381714820862},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2177295684814453}],"concepts":[{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.7160801887512207},{"id":"https://openalex.org/C548314002","wikidata":"https://www.wikidata.org/wiki/Q6839218","display_name":"Microarray databases","level":5,"score":0.5961636304855347},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.5661042928695679},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5659606456756592},{"id":"https://openalex.org/C24361400","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Gene chip analysis","level":5,"score":0.4560243785381317},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4416360855102539},{"id":"https://openalex.org/C186836561","wikidata":"https://www.wikidata.org/wiki/Q1931516","display_name":"Microarray","level":4,"score":0.42644545435905457},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4195738732814789},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4030642509460449},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.38575196266174316},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3653821647167206},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2893381714820862},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2177295684814453}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"Q000235","qualifier_name":"genetics","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":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","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":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","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":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-11-s1-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s1-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S1-S8","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:20122245","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20122245","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:3009543","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3009543","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"},{"id":"pmh:oai:doaj.org/article:d751b42e49c14826967c83a0510d3092","is_oa":true,"landing_page_url":"https://doaj.org/article/d751b42e49c14826967c83a0510d3092","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss Suppl 1, p S8 (2010)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-s1-s8","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s1-s8","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S1-S8","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/G1064989319","display_name":null,"funder_award_id":"U54/GM62119","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2916074237","display_name":null,"funder_award_id":"P01 HG-00205","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G407050446","display_name":null,"funder_award_id":"T15LM 007033","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G7059760003","display_name":"Revolutionizing Biomedical and Clinical Research through Innovative Technology","funder_award_id":"4p01hg000205-27","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2101930552.pdf","grobid_xml":"https://content.openalex.org/works/W2101930552.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1604052462","https://openalex.org/W1967490380","https://openalex.org/W1970250905","https://openalex.org/W1998110092","https://openalex.org/W2008788290","https://openalex.org/W2020859582","https://openalex.org/W2044525257","https://openalex.org/W2069645361","https://openalex.org/W2080498142","https://openalex.org/W2081468394","https://openalex.org/W2103017472","https://openalex.org/W2104108767","https://openalex.org/W2109831613","https://openalex.org/W2110280725","https://openalex.org/W2130410032","https://openalex.org/W2134224359","https://openalex.org/W2135187880","https://openalex.org/W2137082708","https://openalex.org/W2137497140","https://openalex.org/W2138973161","https://openalex.org/W2148603752","https://openalex.org/W2149298154","https://openalex.org/W2150926065","https://openalex.org/W2162142896","https://openalex.org/W2165674132","https://openalex.org/W2167190345"],"related_works":["https://openalex.org/W2943416042","https://openalex.org/W1544923801","https://openalex.org/W2160130936","https://openalex.org/W77579337","https://openalex.org/W2994424261","https://openalex.org/W170658859","https://openalex.org/W2086336666","https://openalex.org/W2412120523","https://openalex.org/W2490137852","https://openalex.org/W3023720143"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1],"large":[2],"amount":[3],"of":[4,12,28,50,54,72,80,87,99,110,113,152,197],"high-throughput":[5,39],"genomic":[6],"data":[7,34,41,82,135,157,161],"has":[8],"facilitated":[9],"the":[10,13,38,48,70,78,103,195],"discovery":[11,27,196],"regulatory":[14,74,167,199],"relationships":[15,31,75,200],"between":[16],"transcription":[17],"factors":[18],"and":[19,102,124,143,158,182],"their":[20],"target":[21],"genes.":[22],"While":[23],"early":[24],"methods":[25],"for":[26,174],"transcriptional":[29,73,129],"regulation":[30],"from":[32,90,133,201],"microarray":[33,81,134],"often":[35],"focused":[36],"on":[37],"experimental":[40],"alone,":[42],"more":[43],"recent":[44],"approaches":[45],"have":[46],"explored":[47],"integration":[49],"external":[51],"knowledge":[52,93,145,184],"bases":[53,146],"gene":[55,198,204],"interactions.":[56],"RESULTS:":[57],"In":[58],"this":[59],"work,":[60],"we":[61,116],"develop":[62],"an":[63,91],"algorithm":[64],"that":[65,118,140,163],"provides":[66],"improved":[67],"performance":[68],"in":[69,126,169],"prediction":[71,149],"by":[76],"supplementing":[77],"analysis":[79],"with":[83,155,188],"a":[84,96,107],"new":[85,128],"method":[86],"integrating":[88],"information":[89,112],"existing":[92],"base.":[94],"Using":[95],"well-known":[97],"dataset":[98],"yeast":[100,114,170],"microarrays":[101],"Yeast":[104],"Proteome":[105],"Database,":[106],"comprehensive":[108],"collection":[109],"known":[111],"genes,":[115],"show":[117,139],"knowledge-based":[119],"predictions":[120,132],"demonstrate":[121],"better":[122,148],"sensitivity":[123],"specificity":[125],"inferring":[127],"interactions":[130],"than":[131],"alone.":[136],"We":[137],"also":[138],"comprehensive,":[141,181],"direct":[142,183],"high-quality":[144],"provide":[147],"performance.":[150],"Comparison":[151],"our":[153,164],"results":[154],"ChIP-chip":[156],"growth":[159],"fitness":[160],"suggests":[162],"predicted":[165],"genome-wide":[166],"pairs":[168],"are":[171],"reasonable":[172],"candidates":[173],"follow-up":[175],"biological":[176],"verification.":[177],"CONCLUSION:":[178],"High":[179],"quality,":[180],"bases,":[185],"when":[186],"combined":[187],"appropriate":[189],"bioinformatic":[190],"algorithms,":[191],"can":[192],"significantly":[193],"improve":[194],"high":[202],"throughput":[203],"expression":[205],"data.":[206]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}