{"id":"https://openalex.org/W4390992144","doi":"https://doi.org/10.1109/bibm58861.2023.10385960","title":"Assessing Tree-Based Phenotype Prediction on the UK Biobank","display_name":"Assessing Tree-Based Phenotype Prediction on the UK Biobank","publication_year":2023,"publication_date":"2023-12-05","ids":{"openalex":"https://openalex.org/W4390992144","doi":"https://doi.org/10.1109/bibm58861.2023.10385960"},"language":"en","primary_location":{"id":"doi:10.1109/bibm58861.2023.10385960","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385960","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078150182","display_name":"Alex Mel\u00e9ndez","orcid":"https://orcid.org/0009-0007-0610-6761"},"institutions":[{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Alex Mel\u00e9ndez","raw_affiliation_strings":["Universitat Politècnica de Catalunya,Barcelona,Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat Politècnica de Catalunya,Barcelona,Spain","institution_ids":["https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017532683","display_name":"Cayetana L\u00f3pez","orcid":null},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cayetana L\u00f3pez","raw_affiliation_strings":["Stanford University,Stanford,CA,USA","Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071174402","display_name":"David Bonet","orcid":"https://orcid.org/0000-0001-7493-2239"},"institutions":[{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"David Bonet","raw_affiliation_strings":["Universitat Politècnica de Catalunya,Barcelona,Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat Politècnica de Catalunya,Barcelona,Spain","institution_ids":["https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076945022","display_name":"Gerard Sant","orcid":null},"institutions":[{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Gerard Sant","raw_affiliation_strings":["Universitat Politècnica de Catalunya,Barcelona,Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat Politècnica de Catalunya,Barcelona,Spain","institution_ids":["https://openalex.org/I9617848"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081614352","display_name":"Daniel Mas Montserrat","orcid":"https://orcid.org/0000-0002-7946-7724"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Daniel Mas Montserrat","raw_affiliation_strings":["Stanford University,Stanford,CA,USA","Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079471197","display_name":"Jordi Abante","orcid":"https://orcid.org/0000-0003-4137-2858"},"institutions":[{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["ES","US"],"is_corresponding":false,"raw_author_name":"Jordi Abante","raw_affiliation_strings":["Stanford University,Stanford,CA,USA","Stanford University, Stanford, CA, USA","Universitat de Barcelona, Barcelona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Universitat de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073710029","display_name":"Manuel A. Rivas","orcid":"https://orcid.org/0000-0003-1457-9925"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Manuel Rivas","raw_affiliation_strings":["Stanford University,Stanford,CA,USA","Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056889165","display_name":"Ferran Marqu\u00e9s","orcid":"https://orcid.org/0000-0001-8311-1168"},"institutions":[{"id":"https://openalex.org/I9617848","display_name":"Universitat Polit\u00e8cnica de Catalunya","ror":"https://ror.org/03mb6wj31","country_code":"ES","type":"education","lineage":["https://openalex.org/I9617848"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ferran Marqu\u00e9s","raw_affiliation_strings":["Universitat Politècnica de Catalunya,Barcelona,Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat Politècnica de Catalunya,Barcelona,Spain","institution_ids":["https://openalex.org/I9617848"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010394714","display_name":"Alexander Ioannidis","orcid":null},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander G. Ioannidis","raw_affiliation_strings":["Stanford University,Stanford,CA,USA","Stanford University, Stanford, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Stanford University,Stanford,CA,USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.574,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.77291879,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9987000226974487,"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":0.9987000226974487,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9954000115394592,"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/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.9871000051498413,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biobank","display_name":"Biobank","score":0.7477890253067017},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6815446615219116},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5119043588638306},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5058578848838806},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.47155046463012695},{"id":"https://openalex.org/keywords/decision-tree","display_name":"Decision tree","score":0.45165762305259705},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.4338289499282837},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.41665780544281006},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37648701667785645},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33488529920578003},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2562316060066223},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1753268539905548},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1510438323020935},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.12574702501296997},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12317490577697754}],"concepts":[{"id":"https://openalex.org/C116567970","wikidata":"https://www.wikidata.org/wiki/Q864217","display_name":"Biobank","level":2,"score":0.7477890253067017},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6815446615219116},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5119043588638306},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5058578848838806},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.47155046463012695},{"id":"https://openalex.org/C84525736","wikidata":"https://www.wikidata.org/wiki/Q831366","display_name":"Decision tree","level":2,"score":0.45165762305259705},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.4338289499282837},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.41665780544281006},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37648701667785645},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33488529920578003},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2562316060066223},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1753268539905548},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1510438323020935},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.12574702501296997},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12317490577697754},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm58861.2023.10385960","is_oa":false,"landing_page_url":"http://dx.doi.org/10.1109/bibm58861.2023.10385960","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Peace, Justice and strong institutions","score":0.5799999833106995,"id":"https://metadata.un.org/sdg/16"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W1553373771","https://openalex.org/W1594031697","https://openalex.org/W1678356000","https://openalex.org/W1988790447","https://openalex.org/W2056132907","https://openalex.org/W2101234009","https://openalex.org/W2112364454","https://openalex.org/W2122825543","https://openalex.org/W2135046866","https://openalex.org/W2295598076","https://openalex.org/W2768348081","https://openalex.org/W2911964244","https://openalex.org/W2949626150","https://openalex.org/W2964022491","https://openalex.org/W3091160076","https://openalex.org/W3092519965","https://openalex.org/W4213251304","https://openalex.org/W4223596053","https://openalex.org/W4225137957","https://openalex.org/W4280537111","https://openalex.org/W4287811955","https://openalex.org/W4293582077","https://openalex.org/W4293785792","https://openalex.org/W4294975504","https://openalex.org/W4310599311","https://openalex.org/W4362666447","https://openalex.org/W4362733473","https://openalex.org/W6745609711","https://openalex.org/W6750729320","https://openalex.org/W6776395838"],"related_works":["https://openalex.org/W4285087457","https://openalex.org/W2105971613","https://openalex.org/W3113746618","https://openalex.org/W4226051228","https://openalex.org/W4226156868","https://openalex.org/W4244742767","https://openalex.org/W2024651825","https://openalex.org/W4248738672","https://openalex.org/W2323349009","https://openalex.org/W2470939431"],"abstract_inverted_index":{"Precision":[0],"medicine":[1],"relies":[2],"on":[3,28],"the":[4,40,61,75,100,111,134],"ability":[5],"to":[6,18,94,157,165],"identify":[7],"associations":[8],"between":[9,169],"genomic":[10,30],"data":[11,33],"and":[12,31,45,60,78,88,91,106,123,171],"its":[13],"phenotypic":[14,32],"expression":[15],"in":[16,110,177],"order":[17],"provide":[19],"personalized":[20,182],"predictions.":[21],"Phenotype":[22],"prediction":[23,76,96,101],"using":[24,115],"statistical":[25],"models":[26,163],"trained":[27],"large-scale":[29],"is":[34,66],"a":[35,131],"critical":[36],"research":[37],"area":[38],"at":[39],"intersection":[41],"of":[42,63,80,133,136,159],"machine":[43],"learning":[44],"genomics.":[46],"Current":[47],"genotype-to-phenotype":[48],"models,":[49],"such":[50],"as":[51,130],"polygenic":[52],"risk":[53],"scores,":[54],"only":[55],"account":[56],"for":[57,103,127,175,181],"linear":[58,95,160],"relationships,":[59],"use":[62],"nonlinear":[64,82,167],"methods":[65],"still":[67],"partially":[68],"unexplored.":[69],"In":[70],"this":[71],"work,":[72],"we":[73,119],"evaluate":[74],"accuracy":[77,122],"scalability":[79],"nine":[81],"decision":[83],"tree-based":[84,144],"algorithms,":[85],"including":[86],"ensembling":[87],"boosting":[89],"mechanisms,":[90],"compare":[92],"them":[93],"models.":[97],"We":[98],"assess":[99],"performance":[102],"24":[104],"anthropometric":[105],"disease-related":[107],"phenotypes":[108,172],"present":[109],"UK":[112],"Biobank.":[113],"By":[114],"random":[116],"feature":[117],"selection,":[118],"explore":[120],"how":[121],"computational":[124,154,179],"time":[125],"vary":[126],"each":[128],"method":[129],"function":[132],"number":[135],"genetic":[137],"variants":[138],"selected.":[139],"Our":[140],"results":[141],"show":[142],"that":[143],"methods,":[145],"especially":[146],"gradientboosted":[147],"trees,":[148],"can":[149],"offer":[150],"superior":[151],"predictions":[152],"with":[153],"times":[155],"comparable":[156],"those":[158],"methods.":[161],"Thus,":[162],"able":[164],"capture":[166],"relationships":[168],"genotypes":[170],"merit":[173],"consideration":[174],"integration":[176],"upcoming":[178],"systems":[180],"medicine.":[183]},"counts_by_year":[{"year":2024,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}