{"id":"https://openalex.org/W4406405895","doi":"https://doi.org/10.1186/s13040-024-00421-w","title":"Genome-wide association studies are enriched for interacting genes","display_name":"Genome-wide association studies are enriched for interacting genes","publication_year":2025,"publication_date":"2025-01-15","ids":{"openalex":"https://openalex.org/W4406405895","doi":"https://doi.org/10.1186/s13040-024-00421-w","pmid":"https://pubmed.ncbi.nlm.nih.gov/39815328"},"language":"en","primary_location":{"id":"doi:10.1186/s13040-024-00421-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-024-00421-w","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-024-00421-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-024-00421-w","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005449334","display_name":"Peter Nguyen","orcid":"https://orcid.org/0000-0001-5008-4052"},"institutions":[{"id":"https://openalex.org/I1282927834","display_name":"Cedars-Sinai Medical Center","ror":"https://ror.org/02pammg90","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1282927834"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Peter T. Nguyen","raw_affiliation_strings":["The Department of Biomedical and Translational Sciences, Cedars-Sinai Medical Center, Los Angeles, CA, 90048, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Department of Biomedical and Translational Sciences, Cedars-Sinai Medical Center, Los Angeles, CA, 90048, USA","institution_ids":["https://openalex.org/I1282927834"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015262217","display_name":"Simon G. Coetzee","orcid":"https://orcid.org/0000-0003-4267-5930"},"institutions":[{"id":"https://openalex.org/I1282927834","display_name":"Cedars-Sinai Medical Center","ror":"https://ror.org/02pammg90","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1282927834"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simon G. Coetzee","raw_affiliation_strings":["The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA","institution_ids":["https://openalex.org/I1282927834"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088227912","display_name":"Irina Silacheva","orcid":null},"institutions":[{"id":"https://openalex.org/I1282927834","display_name":"Cedars-Sinai Medical Center","ror":"https://ror.org/02pammg90","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1282927834"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Irina Silacheva","raw_affiliation_strings":["The Department of Biomedical and Translational Sciences, Cedars-Sinai Medical Center, Los Angeles, CA, 90048, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Department of Biomedical and Translational Sciences, Cedars-Sinai Medical Center, Los Angeles, CA, 90048, USA","institution_ids":["https://openalex.org/I1282927834"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050826378","display_name":"Dennis J. Hazelett","orcid":"https://orcid.org/0000-0003-0749-9935"},"institutions":[{"id":"https://openalex.org/I1282927834","display_name":"Cedars-Sinai Medical Center","ror":"https://ror.org/02pammg90","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1282927834"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Dennis J. Hazelett","raw_affiliation_strings":["The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA. Dennis.Hazelett@csmc.edu","The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA. Dennis.Hazelett@csmc.edu","institution_ids":["https://openalex.org/I1282927834"]},{"raw_affiliation_string":"The Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA, 90069, USA","institution_ids":["https://openalex.org/I1282927834"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5050826378"],"corresponding_institution_ids":["https://openalex.org/I1282927834"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.4343,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.86178833,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":97},"biblio":{"volume":"18","issue":"1","first_page":"3","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.6172000169754028,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.6172000169754028,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.2476000040769577,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.06620000302791595,"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/genome-wide-association-study","display_name":"Genome-wide association study","score":0.638638973236084},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.5820690989494324},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5264554619789124},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5228293538093567},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5056037902832031},{"id":"https://openalex.org/keywords/genetic-association","display_name":"Genetic association","score":0.4544641375541687},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4440455734729767},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4218790531158447},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4075896739959717},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.20096734166145325},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.11024510860443115},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.10479551553726196}],"concepts":[{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.638638973236084},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.5820690989494324},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5264554619789124},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5228293538093567},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5056037902832031},{"id":"https://openalex.org/C186413461","wikidata":"https://www.wikidata.org/wiki/Q744727","display_name":"Genetic association","level":5,"score":0.4544641375541687},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4440455734729767},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4218790531158447},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4075896739959717},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.20096734166145325},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.11024510860443115},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.10479551553726196},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/s13040-024-00421-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-024-00421-w","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-024-00421-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},{"id":"pmid:39815328","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39815328","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":"BioData mining","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11734473","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11734473","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11734473/pdf/13040_2024_Article_421.pdf","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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BioData Min","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:b6fa1c6555e24fb2a87ab260ac69f5c6","is_oa":true,"landing_page_url":"https://doaj.org/article/b6fa1c6555e24fb2a87ab260ac69f5c6","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":"BioData Mining, Vol 18, Iss 1, Pp 1-18 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/s13040-024-00421-w","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13040-024-00421-w","pdf_url":"https://biodatamining.biomedcentral.com/counter/pdf/10.1186/s13040-024-00421-w","source":{"id":"https://openalex.org/S84409260","display_name":"BioData Mining","issn_l":"1756-0381","issn":["1756-0381"],"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-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BioData Mining","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2612212953","display_name":null,"funder_award_id":"R01 LM010098","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4406405895.pdf","grobid_xml":"https://content.openalex.org/works/W4406405895.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1975839434","https://openalex.org/W2051314902","https://openalex.org/W2074801231","https://openalex.org/W2104474654","https://openalex.org/W2131050852","https://openalex.org/W2132559433","https://openalex.org/W2158740417","https://openalex.org/W2195359644","https://openalex.org/W2209106767","https://openalex.org/W2242941817","https://openalex.org/W2264585211","https://openalex.org/W2519527699","https://openalex.org/W2593940628","https://openalex.org/W2725988230","https://openalex.org/W2761275051","https://openalex.org/W2765253743","https://openalex.org/W2794480084","https://openalex.org/W2801470635","https://openalex.org/W2894573839","https://openalex.org/W2896285686","https://openalex.org/W2901303766","https://openalex.org/W2950235747","https://openalex.org/W2988844429","https://openalex.org/W2997280954","https://openalex.org/W3007352713","https://openalex.org/W3024294833","https://openalex.org/W3093674228","https://openalex.org/W3094645479","https://openalex.org/W3100732120","https://openalex.org/W3106882819","https://openalex.org/W3131634425","https://openalex.org/W3151678771","https://openalex.org/W3196214900","https://openalex.org/W3210601686","https://openalex.org/W4245100863","https://openalex.org/W4294051824","https://openalex.org/W4308834893","https://openalex.org/W4315644439","https://openalex.org/W4319312577","https://openalex.org/W4323543680","https://openalex.org/W4375948288","https://openalex.org/W4385257415"],"related_works":["https://openalex.org/W2594299395","https://openalex.org/W2066467839","https://openalex.org/W2111842731","https://openalex.org/W2170506381","https://openalex.org/W2765794416","https://openalex.org/W2039666944","https://openalex.org/W1531630856","https://openalex.org/W2802045099","https://openalex.org/W1486217206","https://openalex.org/W1992310781"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"recent":[2],"advances":[3],"in":[4,42,118],"single":[5],"cell":[6,19,69],"technology,":[7],"high-throughput":[8],"methods":[9],"provide":[10],"unique":[11],"insight":[12],"into":[13],"disease":[14],"mechanisms":[15],"and":[16,56,60,68,72,99,115,133],"more":[17],"importantly,":[18],"type":[20],"origin.":[21],"Here,":[22],"we":[23,167],"used":[24,80],"multi-omics":[25],"data":[26,63,98],"to":[27,45,64,75,83,149,188],"understand":[28],"how":[29,44],"genetic":[30,47,81,147],"variants":[31,177],"from":[32,160],"genome-wide":[33],"association":[34,150],"studies":[35,151],"influence":[36],"development":[37],"of":[38,53,86,93,123,146,158,163,182],"disease.":[39],"We":[40,79,109],"show":[41],"principle":[43],"use":[46],"algorithms":[48,82,148],"with":[49,137],"normal,":[50],"matching":[51,121],"pairs":[52],"single-nucleus":[54],"RNA-":[55],"ATAC-seq,":[57],"genome":[58],"annotations,":[59],"protein-protein":[61,107],"interaction":[62],"describe":[65],"the":[66],"genes":[67],"types":[70],"collectively":[71],"their":[73],"contribution":[74],"increased":[76],"risk.":[77],"RESULTS:":[78],"measure":[84],"fitness":[85,113],"gene-cell":[87],"set":[88,162],"proposals":[89],"against":[90],"a":[91,154,161,179],"series":[92],"objective":[94,104],"functions":[95],"that":[96,144,175],"capture":[97],"annotations.":[100],"The":[101],"highest":[102],"information":[103],"function":[105],"captured":[106],"interactions.":[108],"observed":[110],"significantly":[111],"greater":[112,180],"scores":[114],"subgraph":[116],"sizes":[117],"foreground":[119],"vs.":[120],"sets":[122],"control":[124],"variants.":[125,165],"Furthermore,":[126],"our":[127],"model":[128,157],"reliably":[129],"identified":[130],"known":[131],"targets":[132],"ligand-receptor":[134],"pairs,":[135],"consistent":[136],"prior":[138],"studies.":[139],"CONCLUSIONS:":[140],"Our":[141],"findings":[142],"suggested":[143],"application":[145],"can":[152],"generate":[153],"coherent":[155],"cellular":[156],"risk":[159],"susceptibility":[164],"Further,":[166],"showed,":[168],"using":[169],"breast":[170],"cancer":[171],"as":[172],"an":[173],"example,":[174],"such":[176],"have":[178],"number":[181],"physical":[183],"interactions":[184],"than":[185],"expected":[186],"due":[187],"chance.":[189]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
