{"id":"https://openalex.org/W1997108778","doi":"https://doi.org/10.1186/1471-2105-13-94","title":"Integrating biological knowledge into variable selection: an empirical Bayes approach with an application in cancer biology","display_name":"Integrating biological knowledge into variable selection: an empirical Bayes approach with an application in cancer biology","publication_year":2012,"publication_date":"2012-05-11","ids":{"openalex":"https://openalex.org/W1997108778","doi":"https://doi.org/10.1186/1471-2105-13-94","mag":"1997108778","pmid":"https://pubmed.ncbi.nlm.nih.gov/22578440"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-13-94","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-94","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-94","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":null,"license_id":null,"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/10.1186/1471-2105-13-94","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046305632","display_name":"Steven M. Hill","orcid":"https://orcid.org/0000-0002-5909-692X"},"institutions":[{"id":"https://openalex.org/I2898336195","display_name":"The Netherlands Cancer Institute","ror":"https://ror.org/03xqtf034","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2898336195"]},{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]},{"id":"https://openalex.org/I4210111138","display_name":"Oncode Institute","ror":"https://ror.org/01n92vv28","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210111138"]}],"countries":["GB","NL"],"is_corresponding":false,"raw_author_name":"Steven M Hill","raw_affiliation_strings":["The Netherlands Cancer Institute, 1066 CX Amsterdam, The Netherlands. steven.hill@warwick.ac.uk","The Netherlands Cancer Institute, 1066 CX, Amsterdam, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Netherlands Cancer Institute, 1066 CX Amsterdam, The Netherlands. steven.hill@warwick.ac.uk","institution_ids":["https://openalex.org/I39555362"]},{"raw_affiliation_string":"The Netherlands Cancer Institute, 1066 CX, Amsterdam, The Netherlands","institution_ids":["https://openalex.org/I4210111138","https://openalex.org/I2898336195"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012792113","display_name":"Richard M. Neve","orcid":"https://orcid.org/0000-0002-7557-5306"},"institutions":[{"id":"https://openalex.org/I4210098673","display_name":"Acentech (United States)","ror":"https://ror.org/010eh3243","country_code":"US","type":"company","lineage":["https://openalex.org/I4210098673"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Richard M Neve","raw_affiliation_strings":["Genentech Inc., San Francisco, CA 94080","Genentech Inc, San Francisco, CA, 94080, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Genentech Inc., San Francisco, CA 94080","institution_ids":["https://openalex.org/I4210098673"]},{"raw_affiliation_string":"Genentech Inc, San Francisco, CA, 94080, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113601122","display_name":"Nora Bayani","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nora Bayani","raw_affiliation_strings":["Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110053310","display_name":"Wen-Lin Kuo","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wen-Lin Kuo","raw_affiliation_strings":["Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082653095","display_name":"Safiyyah Ziyad","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Safiyyah Ziyad","raw_affiliation_strings":["Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Life Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, Alameda","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044658654","display_name":"Paul T. Spellman","orcid":"https://orcid.org/0000-0002-4810-0022"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paul T Spellman","raw_affiliation_strings":["Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR 97239","Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR, 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR 97239","institution_ids":["https://openalex.org/I165690674"]},{"raw_affiliation_string":"Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR, 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028899187","display_name":"Joe W. Gray","orcid":"https://orcid.org/0000-0001-9225-6756"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joe W Gray","raw_affiliation_strings":["Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR 97239","Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR, 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR 97239","institution_ids":["https://openalex.org/I165690674"]},{"raw_affiliation_string":"Center for Spatial Systems Biomedicine, Oregon Health & Science University, Portland, OR, 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112866063","display_name":"Sach Mukherjee","orcid":null},"institutions":[{"id":"https://openalex.org/I39555362","display_name":"University of Warwick","ror":"https://ror.org/01a77tt86","country_code":"GB","type":"education","lineage":["https://openalex.org/I39555362"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sach Mukherjee","raw_affiliation_strings":["Department of Statistics, University of Warwick, Coventry, CV4 7AL, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Warwick, Coventry, CV4 7AL, UK","institution_ids":["https://openalex.org/I39555362"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":4.5284,"has_fulltext":true,"cited_by_count":28,"citation_normalized_percentile":{"value":0.94824265,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"13","issue":"1","first_page":"94","last_page":"94"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9973000288009644,"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/prior-probability","display_name":"Prior probability","score":0.7573642134666443},{"id":"https://openalex.org/keywords/bayes-theorem","display_name":"Bayes' theorem","score":0.7361276149749756},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6788400411605835},{"id":"https://openalex.org/keywords/frequentist-inference","display_name":"Frequentist inference","score":0.6279204487800598},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5092059969902039},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5014133453369141},{"id":"https://openalex.org/keywords/feature-selection","display_name":"Feature selection","score":0.4960382878780365},{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.4750266671180725},{"id":"https://openalex.org/keywords/bayes-factor","display_name":"Bayes factor","score":0.4735780656337738},{"id":"https://openalex.org/keywords/bayesian-network","display_name":"Bayesian network","score":0.44455230236053467},{"id":"https://openalex.org/keywords/variable","display_name":"Variable (mathematics)","score":0.43330201506614685},{"id":"https://openalex.org/keywords/selection","display_name":"Selection (genetic algorithm)","score":0.4309025704860687},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4299834966659546},{"id":"https://openalex.org/keywords/bayesian-inference","display_name":"Bayesian inference","score":0.39151567220687866},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3772348165512085},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.18698838353157043}],"concepts":[{"id":"https://openalex.org/C177769412","wikidata":"https://www.wikidata.org/wiki/Q278090","display_name":"Prior probability","level":3,"score":0.7573642134666443},{"id":"https://openalex.org/C207201462","wikidata":"https://www.wikidata.org/wiki/Q182505","display_name":"Bayes' theorem","level":3,"score":0.7361276149749756},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6788400411605835},{"id":"https://openalex.org/C162376815","wikidata":"https://www.wikidata.org/wiki/Q2158281","display_name":"Frequentist inference","level":4,"score":0.6279204487800598},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5092059969902039},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5014133453369141},{"id":"https://openalex.org/C148483581","wikidata":"https://www.wikidata.org/wiki/Q446488","display_name":"Feature selection","level":2,"score":0.4960382878780365},{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.4750266671180725},{"id":"https://openalex.org/C142291917","wikidata":"https://www.wikidata.org/wiki/Q4165283","display_name":"Bayes factor","level":4,"score":0.4735780656337738},{"id":"https://openalex.org/C33724603","wikidata":"https://www.wikidata.org/wiki/Q812540","display_name":"Bayesian network","level":2,"score":0.44455230236053467},{"id":"https://openalex.org/C182365436","wikidata":"https://www.wikidata.org/wiki/Q50701","display_name":"Variable (mathematics)","level":2,"score":0.43330201506614685},{"id":"https://openalex.org/C81917197","wikidata":"https://www.wikidata.org/wiki/Q628760","display_name":"Selection (genetic algorithm)","level":2,"score":0.4309025704860687},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4299834966659546},{"id":"https://openalex.org/C160234255","wikidata":"https://www.wikidata.org/wiki/Q812535","display_name":"Bayesian inference","level":3,"score":0.39151567220687866},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3772348165512085},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.18698838353157043},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000970","descriptor_name":"Antineoplastic Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000970","descriptor_name":"Antineoplastic Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000970","descriptor_name":"Antineoplastic Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012107","descriptor_name":"Research Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054316","descriptor_name":"Biomarkers, Pharmacological","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D054316","descriptor_name":"Biomarkers, Pharmacological","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D054316","descriptor_name":"Biomarkers, Pharmacological","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-13-94","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-94","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-94","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22578440","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22578440","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:wrap.warwick.ac.uk:54280","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306400665","display_name":"Warwick Research Archive Portal (University of Warwick)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I39555362","host_organization_name":"University of Warwick","host_organization_lineage":["https://openalex.org/I39555362"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:osti.gov:1626290","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1626290","pdf_url":"https://www.osti.gov/servlets/purl/1626290","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"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":null},{"id":"pmh:oai:doaj.org/article:ea3b77fa7b73436e86d11a1d59c42eac","is_oa":false,"landing_page_url":"https://doaj.org/article/ea3b77fa7b73436e86d11a1d59c42eac","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 13, Iss 1, p 94 (2012)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3503557","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3503557","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"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-13-94","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-94","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-13-94","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":null,"license_id":null,"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/G1285354405","display_name":null,"funder_award_id":"P50 CA 58207","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1286251239","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320337480","funder_display_name":"Basic Energy Sciences"},{"id":"https://openalex.org/G2503023272","display_name":null,"funder_award_id":"Contract No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2776628454","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320337480","funder_display_name":"Basic Energy Sciences"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3327601824","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G3629535602","display_name":null,"funder_award_id":"EPSRC EP/E501311/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G3944918260","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4501827968","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4565140552","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4720017364","display_name":null,"funder_award_id":"U54 CA 112970","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G4963411061","display_name":null,"funder_award_id":"Contract No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337480","funder_display_name":"Basic Energy Sciences"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5083276704","display_name":"Capacity Building in Complexity Science at Warwick","funder_award_id":"EP/E501311/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G542631466","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6767173602","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7203387412","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337480","funder_display_name":"Basic Energy Sciences"},{"id":"https://openalex.org/G7538560101","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7672463193","display_name":null,"funder_award_id":"No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G7800103395","display_name":null,"funder_award_id":"EP/E501311","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G805243471","display_name":null,"funder_award_id":"Contract No. DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G8136987239","display_name":null,"funder_award_id":"U54 CA 112970","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8431251193","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320337480","funder_display_name":"Basic Energy Sciences"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320321800","display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek","ror":"https://ror.org/04jsz6e67"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337480","display_name":"Basic Energy Sciences","ror":"https://ror.org/05mg91w61"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1997108778.pdf","grobid_xml":"https://content.openalex.org/works/W1997108778.grobid-xml"},"referenced_works_count":55,"referenced_works":["https://openalex.org/W171292237","https://openalex.org/W1003711386","https://openalex.org/W1486016120","https://openalex.org/W1566333899","https://openalex.org/W1666386643","https://openalex.org/W1800261609","https://openalex.org/W1964321121","https://openalex.org/W1980645225","https://openalex.org/W1985093013","https://openalex.org/W1989160450","https://openalex.org/W1989371635","https://openalex.org/W1989617311","https://openalex.org/W2001414552","https://openalex.org/W2004996091","https://openalex.org/W2024622153","https://openalex.org/W2025803032","https://openalex.org/W2034269086","https://openalex.org/W2036183522","https://openalex.org/W2036313578","https://openalex.org/W2044868069","https://openalex.org/W2056324615","https://openalex.org/W2057331441","https://openalex.org/W2073307618","https://openalex.org/W2084089095","https://openalex.org/W2095368623","https://openalex.org/W2095622082","https://openalex.org/W2097360283","https://openalex.org/W2106863749","https://openalex.org/W2116063398","https://openalex.org/W2117135012","https://openalex.org/W2122189635","https://openalex.org/W2125904845","https://openalex.org/W2126815340","https://openalex.org/W2128689695","https://openalex.org/W2135046866","https://openalex.org/W2138936157","https://openalex.org/W2142739240","https://openalex.org/W2149139293","https://openalex.org/W2151232515","https://openalex.org/W2154293840","https://openalex.org/W2161148924","https://openalex.org/W2162946128","https://openalex.org/W2166624680","https://openalex.org/W2167368929","https://openalex.org/W2330192890","https://openalex.org/W2475892618","https://openalex.org/W2530014580","https://openalex.org/W3004389950","https://openalex.org/W3100858558","https://openalex.org/W3102022799","https://openalex.org/W3105245600","https://openalex.org/W4239545644","https://openalex.org/W4245662196","https://openalex.org/W4292691288","https://openalex.org/W4294541781"],"related_works":["https://openalex.org/W2015414092","https://openalex.org/W2030651439","https://openalex.org/W3160261929","https://openalex.org/W135634764","https://openalex.org/W2095409590","https://openalex.org/W4235847508","https://openalex.org/W1991984435","https://openalex.org/W2981671826","https://openalex.org/W2046798682","https://openalex.org/W2133205540"],"abstract_inverted_index":{"BACKGROUND:":[0],"An":[1],"important":[2,42],"question":[3],"in":[4,89,100,119,224,264],"the":[5,49,219,235],"analysis":[6],"of":[7,12,15,51,60,63,150,213,250,270],"biochemical":[8],"data":[9,166],"is":[10,70,74,104,238,248,259],"that":[11,18],"identifying":[13],"subsets":[14],"molecular":[16,254],"variables":[17,50],"may":[19,40],"jointly":[20],"influence":[21],"a":[22,61,228],"biological":[23,46,102,271],"response.":[24],"Statistical":[25],"variable":[26,111,204,230],"selection":[27,205,231],"methods":[28,186],"have":[29],"been":[30],"widely":[31],"used":[32,82],"for":[33,152,187,202],"this":[34],"purpose.":[35],"In":[36,233],"many":[37],"settings,":[38],"it":[39,73,79,85],"be":[41,81,87],"to":[43,91,142,171,180,209],"incorporate":[44],"ancillary":[45,68],"information":[47,69,115,156],"concerning":[48],"interest.":[52],"Pathway":[53],"and":[54,117,137,154,157,167,183,207,241,261],"network":[55],"maps":[56],"are":[57,177],"one":[58],"example":[59,149],"source":[62],"such":[64],"information.":[65,190],"However,":[66],"although":[67],"increasingly":[71],"available,":[72],"not":[75],"always":[76],"clear":[77],"how":[78,84],"should":[80,86],"nor":[83],"weighted":[88,118],"relation":[90],"primary":[92],"data.":[93,175],"RESULTS:":[94],"We":[95,129,146],"put":[96],"forward":[97],"an":[98,120,125,148,169,225],"approach":[99,226,257],"which":[101],"knowledge":[103],"incorporated":[105],"using":[106,124],"informative":[107],"prior":[108,114,200,272],"distributions":[109],"over":[110],"subsets,":[112],"with":[113,134,218,227,267],"selected":[116],"automated,":[121],"objective":[122],"manner":[123],"empirical":[126,193],"Bayes":[127,194],"formulation.":[128],"employ":[130],"continuous,":[131],"linear":[132],"models":[133],"interaction":[135],"terms":[136],"exploit":[138],"biochemically-motivated":[139],"sparsity":[140],"constraints":[141],"permit":[143],"exact":[144],"inference.":[145],"show":[147],"priors":[151],"pathway-":[153],"network-based":[155,189],"illustrate":[158],"our":[159],"proposed":[160,196,220],"method":[161,195],"on":[162],"both":[163],"synthetic":[164],"response":[165,174],"by":[168],"application":[170],"cancer":[172],"drug":[173],"Comparisons":[176],"also":[178],"made":[179],"alternative":[181],"Bayesian":[182,203],"frequentist":[184],"penalised-likelihood":[185],"incorporating":[188],"CONCLUSIONS:":[191],"The":[192,256],"here":[197],"can":[198],"aid":[199],"elicitation":[201],"studies":[206],"help":[208],"guard":[210],"against":[211],"mis-specification":[212],"priors.":[214],"Empirical":[215],"Bayes,":[216],"together":[217],"pathway-based":[221],"priors,":[222],"results":[223],"competitive":[229],"performance.":[232],"addition,":[234],"overall":[236],"procedure":[237],"fast,":[239],"deterministic,":[240],"has":[242],"very":[243],"few":[244],"user-set":[245],"parameters,":[246],"yet":[247],"capable":[249],"capturing":[251],"interplay":[252],"between":[253],"players.":[255],"presented":[258],"general":[260],"readily":[262],"applicable":[263],"any":[265],"setting":[266],"multiple":[268],"sources":[269],"knowledge.":[273]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":5}],"updated_date":"2026-07-16T13:24:37.021932","created_date":"2025-10-10T00:00:00"}
