{"id":"https://openalex.org/W2144502656","doi":"https://doi.org/10.1093/bioinformatics/btu272","title":"Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks","display_name":"Robust clinical outcome prediction based on Bayesian analysis of transcriptional profiles and prior causal networks","publication_year":2014,"publication_date":"2014-06-11","ids":{"openalex":"https://openalex.org/W2144502656","doi":"https://doi.org/10.1093/bioinformatics/btu272","mag":"2144502656","pmid":"https://pubmed.ncbi.nlm.nih.gov/24932007"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu272","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu272","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/12/i69/17346714/btu272.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/12/i69/17346714/btu272.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035364787","display_name":"Kourosh Zarringhalam","orcid":"https://orcid.org/0000-0002-5108-8108"},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kourosh Zarringhalam","raw_affiliation_strings":["1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany","institution_ids":["https://openalex.org/I180857899"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054882931","display_name":"Ahmed Enayetallah","orcid":null},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ahmed Enayetallah","raw_affiliation_strings":["1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany","institution_ids":["https://openalex.org/I180857899"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114229339","display_name":"P Adithya Vardhan Reddy -","orcid":null},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Padmalatha Reddy","raw_affiliation_strings":["1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany","institution_ids":["https://openalex.org/I180857899"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038688193","display_name":"Daniel Ziemek","orcid":null},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Daniel Ziemek","raw_affiliation_strings":["1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Cambridge, 2Department of Mathematics, University of Massachusetts Boston, Boston, MA, 3Drug Safety Research & Development, Pfizer Worldwide R&D, Groton, CT, USA and 4Computational Sciences Center of Emphasis, Pfizer Worldwide R&D, Berlin, Germany","institution_ids":["https://openalex.org/I180857899"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5038688193"],"corresponding_institution_ids":["https://openalex.org/I180857899"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.6132,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.72975241,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"30","issue":"12","first_page":"i69","last_page":"i77"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10845","display_name":"Advanced Causal Inference Techniques","score":0.49129998683929443,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10845","display_name":"Advanced Causal Inference Techniques","score":0.49129998683929443,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.3481999933719635,"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/T10136","display_name":"Statistical Methods and Inference","score":0.03180000185966492,"subfield":{"id":"https://openalex.org/subfields/2613","display_name":"Statistics and Probability"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bayesian-probability","display_name":"Bayesian probability","score":0.5326834321022034},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5292503237724304},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5147409439086914},{"id":"https://openalex.org/keywords/regression","display_name":"Regression","score":0.49160251021385193},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.478794664144516},{"id":"https://openalex.org/keywords/feature-selection","display_name":"Feature selection","score":0.41754698753356934},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4173109233379364},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3956526219844818},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.27499717473983765},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.18784785270690918},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16354584693908691}],"concepts":[{"id":"https://openalex.org/C107673813","wikidata":"https://www.wikidata.org/wiki/Q812534","display_name":"Bayesian probability","level":2,"score":0.5326834321022034},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5292503237724304},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5147409439086914},{"id":"https://openalex.org/C83546350","wikidata":"https://www.wikidata.org/wiki/Q1139051","display_name":"Regression","level":2,"score":0.49160251021385193},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.478794664144516},{"id":"https://openalex.org/C148483581","wikidata":"https://www.wikidata.org/wiki/Q446488","display_name":"Feature selection","level":2,"score":0.41754698753356934},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4173109233379364},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3956526219844818},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.27499717473983765},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.18784785270690918},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16354584693908691},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069285","descriptor_name":"Infliximab","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069285","descriptor_name":"Infliximab","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069285","descriptor_name":"Infliximab","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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000911","descriptor_name":"Antibodies, Monoclonal","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D000911","descriptor_name":"Antibodies, Monoclonal","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D000911","descriptor_name":"Antibodies, Monoclonal","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","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":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":false},{"descriptor_ui":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003093","descriptor_name":"Colitis, Ulcerative","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006084","descriptor_name":"Graft Rejection","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006084","descriptor_name":"Graft Rejection","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006084","descriptor_name":"Graft Rejection","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010641","descriptor_name":"Phenotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016030","descriptor_name":"Kidney Transplantation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016030","descriptor_name":"Kidney Transplantation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016030","descriptor_name":"Kidney Transplantation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu272","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu272","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/12/i69/17346714/btu272.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24932007","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24932007","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:pubmedcentral.nih.gov:4058945","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4058945","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/btu272","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu272","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/12/i69/17346714/btu272.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2144502656.pdf","grobid_xml":"https://content.openalex.org/works/W2144502656.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1970100315","https://openalex.org/W1970265625","https://openalex.org/W1971061361","https://openalex.org/W1979147243","https://openalex.org/W1986527938","https://openalex.org/W2010203932","https://openalex.org/W2020850832","https://openalex.org/W2022397091","https://openalex.org/W2043764521","https://openalex.org/W2058010499","https://openalex.org/W2062725167","https://openalex.org/W2097360283","https://openalex.org/W2100714130","https://openalex.org/W2103017472","https://openalex.org/W2111021965","https://openalex.org/W2120024428","https://openalex.org/W2138550913","https://openalex.org/W2145245891","https://openalex.org/W2160026116","https://openalex.org/W2160697532","https://openalex.org/W2162137240","https://openalex.org/W2331260641","https://openalex.org/W4294541781"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W2380784125","https://openalex.org/W2914806737","https://openalex.org/W2889085215","https://openalex.org/W3004057759","https://openalex.org/W4224009465","https://openalex.org/W2998216295","https://openalex.org/W2611743072","https://openalex.org/W4306674287","https://openalex.org/W4286629047"],"abstract_inverted_index":{"MOTIVATION:":[0],"Understanding":[1],"and":[2,17,26,39,49,85,89,125,137,170],"predicting":[3],"an":[4],"individual's":[5],"response":[6,171],"in":[7,55,65,82,106,146,167,174,180,200],"a":[8,43,56,98,118,127,147],"clinical":[9],"trial":[10,58],"is":[11,52,216],"the":[12,22,87,201,213],"key":[13],"to":[14,34,77,130,151,172,218,224],"better":[15],"treatments":[16],"cost-:":[18],"effective":[19],"medicine.":[20],"Over":[21],"coming":[23],"years,":[24],"more":[25,27],"large-scale":[28],"omics":[29],"datasets":[30,206],"will":[31],"become":[32],"available":[33],"characterize":[35],"patients":[36],"with":[37,108],"complex":[38],"heterogeneous":[40],"diseases":[41],"at":[42],"molecular":[44],"level.":[45],"Unfortunately,":[46],"genetic,":[47],"phenotypical":[48],"environmental":[50],"variation":[51],"much":[53],"higher":[54],"human":[57],"population":[59],"than":[60],"currently":[61],"modeled":[62],"or":[63],"measured":[64],"most":[66],"animal":[67],"studies.":[68],"In":[69],"our":[70,157,192],"experience,":[71],"this":[72],"high":[73],"variability":[74],"can":[75],"lead":[76],"failure":[78],"of":[79,91,142,191],"trained":[80,182],"predictors":[81,183],"independent":[83,185,205],"studies":[84],"undermines":[86],"credibility":[88],"utility":[90],"promising":[92],"high-dimensional":[93],"datasets.":[94],"METHODS:":[95],"We":[96,155,210],"propose":[97],"method":[99],"that":[100,212],"utilizes":[101],"patient-level":[102],"genome-wide":[103],"expression":[104,120],"data":[105],"conjunction":[107],"causal":[109,221],"networks":[110],"based":[111],"on":[112,203],"prior":[113,222],"knowledge.":[114],"Our":[115],"approach":[116,129,158,193,215],"determines":[117],"differential":[119],"profile":[121],"for":[122,207],"each":[123,208],"patient":[124],"uses":[126],"Bayesian":[128],"infer":[131],"corresponding":[132,139],"upstream":[133],"regulators.":[134],"These":[135],"regulators":[136],"their":[138],"posterior":[140],"probabilities":[141],"activity":[143],"are":[144],"used":[145],"regularized":[148],"regression":[149,202],"framework":[150],"predict":[152],"response.":[153],"RESULTS:":[154],"validated":[156],"using":[159],"two":[160,204],"clinically":[161],"relevant":[162],"phenotypes,":[163],"namely":[164],"acute":[165],"rejection":[166],"kidney":[168],"transplantation":[169],"Infliximab":[173],"ulcerative":[175],"colitis.":[176],"To":[177],"demonstrate":[178],"pitfalls":[179],"translating":[181],"across":[184],"trials,":[186],"we":[187],"analyze":[188],"performance":[189,227],"characteristics":[190],"as":[194,196],"well":[195],"alternative":[197],"feature":[198],"sets":[199],"phenotype.":[209],"show":[211],"proposed":[214],"able":[217],"successfully":[219],"incorporate":[220],"knowledge":[223],"give":[225],"robust":[226],"estimates.":[228]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-08-08T07:41:36.138363","created_date":"2025-10-10T00:00:00"}