{"id":"https://openalex.org/W2889107865","doi":"https://doi.org/10.1093/bioinformatics/bty728","title":"PolyQTL: Bayesian multiple eQTL detection with control for population structure and sample relatedness","display_name":"PolyQTL: Bayesian multiple eQTL detection with control for population structure and sample relatedness","publication_year":2018,"publication_date":"2018-08-23","ids":{"openalex":"https://openalex.org/W2889107865","doi":"https://doi.org/10.1093/bioinformatics/bty728","mag":"2889107865","pmid":"https://pubmed.ncbi.nlm.nih.gov/30165584"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty728","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty728","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/6/1061/48966427/bioinformatics_35_6_1061.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/6/1061/48966427/bioinformatics_35_6_1061.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5030412845","display_name":"Biao Zeng","orcid":"https://orcid.org/0000-0003-4900-2288"},"institutions":[{"id":"https://openalex.org/I130701444","display_name":"Georgia Institute of Technology","ror":"https://ror.org/01zkghx44","country_code":"US","type":"education","lineage":["https://openalex.org/I130701444"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Biao Zeng","raw_affiliation_strings":["School of Biological Sciences and Center for Integrative Genomics, Georgia Institute of Technology, Atlanta, GA 30332, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences and Center for Integrative Genomics, Georgia Institute of Technology, Atlanta, GA 30332, USA","institution_ids":["https://openalex.org/I130701444"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029677222","display_name":"Greg Gibson","orcid":"https://orcid.org/0000-0002-5352-5877"},"institutions":[{"id":"https://openalex.org/I130701444","display_name":"Georgia Institute of Technology","ror":"https://ror.org/01zkghx44","country_code":"US","type":"education","lineage":["https://openalex.org/I130701444"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Greg Gibson","raw_affiliation_strings":["School of Biological Sciences and Center for Integrative Genomics, Georgia Institute of Technology, Atlanta, GA 30332, USA"],"raw_orcid":"https://orcid.org/0000-0002-5352-5877","affiliations":[{"raw_affiliation_string":"School of Biological Sciences and Center for Integrative Genomics, Georgia Institute of Technology, Atlanta, GA 30332, USA","institution_ids":["https://openalex.org/I130701444"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5029677222"],"corresponding_institution_ids":["https://openalex.org/I130701444"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.8961,"has_fulltext":true,"cited_by_count":9,"citation_normalized_percentile":{"value":0.78421945,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"35","issue":"6","first_page":"1061","last_page":"1063"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.86080002784729,"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":0.86080002784729,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.08900000154972076,"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":0.008999999612569809,"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/expression-quantitative-trait-loci","display_name":"Expression quantitative trait loci","score":0.8394511938095093},{"id":"https://openalex.org/keywords/frequentist-inference","display_name":"Frequentist inference","score":0.7400716543197632},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.6461076736450195},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5415158867835999},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.5108808875083923},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5007033348083496},{"id":"https://openalex.org/keywords/multiple-comparisons-problem","display_name":"Multiple comparisons problem","score":0.4166156053543091},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38356417417526245},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.366489440202713},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3621427118778229},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32844340801239014},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23338887095451355},{"id":"https://openalex.org/keywords/bayesian-inference","display_name":"Bayesian inference","score":0.2325221598148346},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.23124292492866516},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1478484869003296},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13434141874313354},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.12296292185783386}],"concepts":[{"id":"https://openalex.org/C168393362","wikidata":"https://www.wikidata.org/wiki/Q5421706","display_name":"Expression quantitative trait loci","level":5,"score":0.8394511938095093},{"id":"https://openalex.org/C162376815","wikidata":"https://www.wikidata.org/wiki/Q2158281","display_name":"Frequentist inference","level":4,"score":0.7400716543197632},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.6461076736450195},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5415158867835999},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.5108808875083923},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5007033348083496},{"id":"https://openalex.org/C183905921","wikidata":"https://www.wikidata.org/wiki/Q1038757","display_name":"Multiple comparisons problem","level":2,"score":0.4166156053543091},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38356417417526245},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.366489440202713},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3621427118778229},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32844340801239014},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23338887095451355},{"id":"https://openalex.org/C160234255","wikidata":"https://www.wikidata.org/wiki/Q812535","display_name":"Bayesian inference","level":3,"score":0.2325221598148346},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.23124292492866516},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1478484869003296},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13434141874313354},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.12296292185783386},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040641","descriptor_name":"Quantitative Trait Loci","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040641","descriptor_name":"Quantitative Trait Loci","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040641","descriptor_name":"Quantitative Trait Loci","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040641","descriptor_name":"Quantitative Trait Loci","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty728","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty728","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/6/1061/48966427/bioinformatics_35_6_1061.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30165584","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30165584","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:europepmc.org:6006083","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6419993","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty728","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty728","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/6/1061/48966427/bioinformatics_35_6_1061.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2804479193","display_name":null,"funder_award_id":"1R01-HG008146","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3463656893","display_name":null,"funder_award_id":"R01 HG008146","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G7953751253","display_name":null,"funder_award_id":"HG008146","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320320351","display_name":"Commonwealth Scholarship Commission","ror":"https://ror.org/051x4wh35"},{"id":"https://openalex.org/F4320322725","display_name":"China Scholarship Council","ror":"https://ror.org/04atp4p48"},{"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"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2889107865.pdf","grobid_xml":"https://content.openalex.org/works/W2889107865.grobid-xml"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W1862369546","https://openalex.org/W1980168725","https://openalex.org/W1981041672","https://openalex.org/W1993616000","https://openalex.org/W2029892338","https://openalex.org/W2060181803","https://openalex.org/W2090075367","https://openalex.org/W2104549677","https://openalex.org/W2138298093","https://openalex.org/W2152885121","https://openalex.org/W2297334215","https://openalex.org/W2400221198","https://openalex.org/W2761275051"],"related_works":["https://openalex.org/W2944091050","https://openalex.org/W2998817056","https://openalex.org/W4221107656","https://openalex.org/W2077878098","https://openalex.org/W2904258669","https://openalex.org/W4313815718","https://openalex.org/W1506744765","https://openalex.org/W996380913","https://openalex.org/W2024084279","https://openalex.org/W4225555917"],"abstract_inverted_index":{"MOTIVATION:":[0],"Expression":[1],"quantitative":[2],"loci":[3,120],"(eQTL)":[4],"are":[5],"being":[6],"used":[7],"widely":[8],"to":[9,40,89,107,141],"annotate":[10],"and":[11,34,43,55,65,78,96,158],"interpret":[12],"GWAS":[13],"hits.":[14],"Recent":[15],"studies":[16],"have":[17,36],"demonstrated":[18],"that":[19,129,143],"individual":[20],"gene":[21],"expression":[22],"is":[23,154],"often":[24],"regulated":[25],"by":[26],"multiple":[27,46,103],"independent":[28,119],"cis-acting":[29],"eQTL.":[30],"Diverse":[31],"methods,":[32],"frequentist":[33],"Bayesian,":[35],"already":[37],"been":[38],"developed":[39],"simultaneously":[41],"detect":[42],"fine-map":[44],"such":[45],"eQTL,":[47],"but":[48],"most":[49,110],"of":[50,69,93,123,135,137],"these":[51],"ignore":[52],"sample":[53,97],"relatedness":[54,87],"potential":[56],"population":[57,94],"structure.":[58],"This":[59],"can":[60],"result":[61],"in":[62,156],"false":[63],"positives":[64],"disrupt":[66],"the":[67,91,109,133],"accuracy":[68],"fine-mapping.":[70],"Here":[71],"we":[72],"introduce":[73],"PolyQTL":[74],"software":[75,153],"for":[76,147,161],"identifying":[77],"estimating":[79],"eQTL":[80,104],"effects.":[81],"The":[82,152],"package":[83],"incorporates":[84],"a":[85,101,124],"genetic":[86],"matrix":[88],"remove":[90],"influence":[92],"structure":[95],"relatedness,":[98],"while":[99],"utilizing":[100],"Bayesian":[102],"detection":[105],"pipeline":[106],"identify":[108],"plausible":[111],"candidate":[112],"causal":[113,138],"variants":[114,139],"at":[115,163],"one":[116],"or":[117],"more":[118],"influencing":[121],"abundance":[122],"transcript.":[125],"RESULTS:":[126],"Simulations":[127],"demonstrate":[128],"our":[130],"approach":[131],"improves":[132],"rate":[134],"discovery":[136],"relative":[140],"methods":[142],"do":[144],"not":[145],"account":[146],"relatedness.":[148],"AVAILABILITY":[149],"AND":[150],"IMPLEMENTATION:":[151],"written":[155],"C++,":[157],"freely":[159],"available":[160],"download":[162],"https://github.com/jxzb1988/PolyQTL.":[164]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":3},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":2}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
