{"id":"https://openalex.org/W1860485833","doi":"https://doi.org/10.1093/bioinformatics/btv631","title":"Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes","display_name":"Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes","publication_year":2015,"publication_date":"2015-10-30","ids":{"openalex":"https://openalex.org/W1860485833","doi":"https://doi.org/10.1093/bioinformatics/btv631","mag":"1860485833","pmid":"https://pubmed.ncbi.nlm.nih.gov/26519502"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv631","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/682/25588971/btv631.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/32/5/682/25588971/btv631.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103096808","display_name":"Ben Li","orcid":null},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ben Li","raw_affiliation_strings":["1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,","institution_ids":["https://openalex.org/I150468666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000182790","display_name":"Zhaonan Sun","orcid":"https://orcid.org/0000-0003-4471-3478"},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhaonan Sun","raw_affiliation_strings":["2 Department of Statistics, Purdue University, West Lafayette, IN 47906, USA and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2 Department of Statistics, Purdue University, West Lafayette, IN 47906, USA and","institution_ids":["https://openalex.org/I219193219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100646656","display_name":"Qing\u2010Yu He","orcid":"https://orcid.org/0000-0003-0503-9492"},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qing He","raw_affiliation_strings":["1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,","institution_ids":["https://openalex.org/I150468666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101909518","display_name":"Yu Zhu","orcid":"https://orcid.org/0000-0001-5403-0174"},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yu Zhu","raw_affiliation_strings":["2 Department of Statistics, Purdue University, West Lafayette, IN 47906, USA and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2 Department of Statistics, Purdue University, West Lafayette, IN 47906, USA and","institution_ids":["https://openalex.org/I219193219"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042399779","display_name":"Zhaohui Qin","orcid":"https://orcid.org/0000-0002-1583-146X"},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Zhaohui S. Qin","raw_affiliation_strings":["1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,","3 Department of Biomedical Informatics, Emory University School of Medicine, Atlanta, GA 30322, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biostatistics and Bioinformatics, Rollins School of Public Health, Emory University, Atlanta, GA 30322, USA,","institution_ids":["https://openalex.org/I150468666"]},{"raw_affiliation_string":"3 Department of Biomedical Informatics, Emory University School of Medicine, Atlanta, GA 30322, USA","institution_ids":["https://openalex.org/I150468666"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5042399779","https://openalex.org/A5101909518"],"corresponding_institution_ids":["https://openalex.org/I150468666","https://openalex.org/I219193219"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4517,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.65175638,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"32","issue":"5","first_page":"682","last_page":"689"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9042999744415283,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9042999744415283,"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/T11303","display_name":"Bayesian Modeling and Causal Inference","score":0.022199999541044235,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.016699999570846558,"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/computer-science","display_name":"Computer science","score":0.7718219757080078},{"id":"https://openalex.org/keywords/prior-probability","display_name":"Prior probability","score":0.7586679458618164},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.721065104007721},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.6292189359664917},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5610949993133545},{"id":"https://openalex.org/keywords/bayesian-inference","display_name":"Bayesian inference","score":0.5362372398376465},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.5102648735046387},{"id":"https://openalex.org/keywords/statistical-inference","display_name":"Statistical inference","score":0.4485147297382355},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4406302571296692},{"id":"https://openalex.org/keywords/protocol","display_name":"Protocol (science)","score":0.4258801341056824},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33924633264541626},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.09423330426216125},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08732333779335022}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7718219757080078},{"id":"https://openalex.org/C177769412","wikidata":"https://www.wikidata.org/wiki/Q278090","display_name":"Prior probability","level":3,"score":0.7586679458618164},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.721065104007721},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.6292189359664917},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5610949993133545},{"id":"https://openalex.org/C160234255","wikidata":"https://www.wikidata.org/wiki/Q812535","display_name":"Bayesian inference","level":3,"score":0.5362372398376465},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.5102648735046387},{"id":"https://openalex.org/C134261354","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical inference","level":2,"score":0.4485147297382355},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4406302571296692},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.4258801341056824},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33924633264541626},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.09423330426216125},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08732333779335022},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv631","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/682/25588971/btv631.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:26519502","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26519502","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:open-archive.highwire.org:bioinfo:32/5/682","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/5/682","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:4907396","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4907396","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv631","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv631","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/682/25588971/btv631.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":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.44999998807907104}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W1770845643","https://openalex.org/W1792175597","https://openalex.org/W1969242318","https://openalex.org/W1969441159","https://openalex.org/W1970357458","https://openalex.org/W1971100096","https://openalex.org/W1972416794","https://openalex.org/W1976611840","https://openalex.org/W1995017987","https://openalex.org/W1998712640","https://openalex.org/W2002065650","https://openalex.org/W2045656233","https://openalex.org/W2065817349","https://openalex.org/W2081098333","https://openalex.org/W2082613627","https://openalex.org/W2103017472","https://openalex.org/W2107411032","https://openalex.org/W2108539496","https://openalex.org/W2110065044","https://openalex.org/W2113878188","https://openalex.org/W2118070789","https://openalex.org/W2122863820","https://openalex.org/W2133465414","https://openalex.org/W2154431984","https://openalex.org/W2157795344","https://openalex.org/W2158217645","https://openalex.org/W2158692417","https://openalex.org/W2162169788","https://openalex.org/W2168390964","https://openalex.org/W2169103656","https://openalex.org/W2170989872","https://openalex.org/W2318405211","https://openalex.org/W2497297917","https://openalex.org/W4232383088","https://openalex.org/W4294107304","https://openalex.org/W6675699717","https://openalex.org/W6684653394"],"related_works":["https://openalex.org/W2104594922","https://openalex.org/W2953280030","https://openalex.org/W2889562828","https://openalex.org/W4377139074","https://openalex.org/W199069955","https://openalex.org/W1971976127","https://openalex.org/W2186704905","https://openalex.org/W2950480453","https://openalex.org/W2394054250","https://openalex.org/W2887284286"],"abstract_inverted_index":{"MOTIVATION:":[0],"Modern":[1],"high-throughput":[2,23,48],"biotechnologies":[3],"such":[4],"as":[5],"microarray":[6,128],"are":[7,236],"capable":[8],"of":[9,14,28,46,56,108,136,149,186],"producing":[10],"a":[11,21,53,85,97,199],"massive":[12],"amount":[13],"information":[15],"for":[16,203],"each":[17],"sample.":[18],"However,":[19],"in":[20,52,96,104,120,146,194,219],"typical":[22],"experiment,":[24],"only":[25],"limited":[26],"number":[27],"samples":[29],"were":[30],"assayed,":[31],"thus":[32],"the":[33,41,62,67,76,101,106,132,147,163,171,182,188,206],"classical":[34],"'large":[35,207],"p,":[36,208],"small":[37,209],"n'":[38,210],"problem.":[39,211],"On":[40],"other":[42],"hand,":[43],"rapid":[44],"propagation":[45],"these":[47],"technologies":[49],"has":[50],"resulted":[51],"substantial":[54],"collection":[55],"data,":[57,129],"often":[58],"carried":[59,94],"out":[60,95],"on":[61,84],"same":[63,68],"platform":[64],"and":[65,82,118,134,143,156,173,184,197],"using":[66,127,144],"protocol.":[69],"It":[70],"is":[71,217,224],"highly":[72],"desirable":[73],"to":[74,114],"utilize":[75],"existing":[77,90,168],"data":[78,91,110,122,142,158,193,235],"when":[79],"performing":[80],"analysis":[81],"inference":[83,196],"new":[86,121],"dataset.":[87],"RESULTS:":[88],"Utilizing":[89],"can":[92,111],"be":[93,112],"straightforward":[98],"fashion":[99],"under":[100],"Bayesian":[102,175],"framework":[103],"which":[105,223],"repository":[107],"historical":[109,141],"exploited":[113],"build":[115],"informative":[116,138],"priors":[117,139],"used":[119],"analysis.":[123],"In":[124],"this":[125],"work,":[126],"we":[130,160],"investigate":[131],"feasibility":[133,183],"effectiveness":[135],"deriving":[137],"from":[140,227],"them":[145],"problem":[148],"detecting":[150],"differentially":[151],"expressed":[152],"genes.":[153],"Through":[154],"simulation":[155],"real":[157],"analysis,":[159],"show":[161],"that":[162],"proposed":[164],"strategy":[165,202],"significantly":[166],"outperforms":[167],"methods":[169],"including":[170],"popular":[172],"state-of-the-art":[174],"hierarchical":[176],"model-based":[177],"approaches.":[178],"Our":[179,215],"work":[180],"illustrates":[181],"benefits":[185],"exploiting":[187],"increasingly":[189],"available":[190,226,237],"genomics":[191],"big":[192],"statistical":[195],"presents":[198],"promising":[200],"practical":[201],"dealing":[204],"with":[205],"AVAILABILITY":[212],"AND":[213],"IMPLEMENTATION:":[214],"method":[216],"implemented":[218],"R":[220],"package":[221],"IPBT,":[222],"freely":[225],"https://github.com/benliemory/IPBT":[228],"CONTACT:":[229],"yuzhu@purdue.edu;":[230],"zhaohui.qin@emory.edu":[231],"SUPPLEMENTARY":[232],"INFORMATION:":[233],"Supplementary":[234],"at":[238],"Bioinformatics":[239],"online.":[240]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}