{"id":"https://openalex.org/W3000373012","doi":"https://doi.org/10.1093/bib/bbz164","title":"A survey and systematic assessment of computational methods for drug response prediction","display_name":"A survey and systematic assessment of computational methods for drug response prediction","publication_year":2019,"publication_date":"2019-11-23","ids":{"openalex":"https://openalex.org/W3000373012","doi":"https://doi.org/10.1093/bib/bbz164","mag":"3000373012","pmid":"https://pubmed.ncbi.nlm.nih.gov/31927568"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbz164","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbz164","pdf_url":"https://academic.oup.com/bib/article-pdf/22/1/232/35934931/bbz164.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in 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/bib/article-pdf/22/1/232/35934931/bbz164.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100730366","display_name":"Jinyu Chen","orcid":"https://orcid.org/0000-0003-2811-3958"},"institutions":[{"id":"https://openalex.org/I151746483","display_name":"University of Waterloo","ror":"https://ror.org/01aff2v68","country_code":"CA","type":"education","lineage":["https://openalex.org/I151746483"]},{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210120485","display_name":"Academy of Mathematics and Systems Science","ror":"https://ror.org/02jkmyk67","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210120485"]}],"countries":["CA","CN","SG"],"is_corresponding":false,"raw_author_name":"Jinyu Chen","raw_affiliation_strings":["Department of Mathematics and the Computational Biology Programme, National University of Singapore","Department of Mathematics and Computational Biology Programme, National University of Singapore, Singapore 119076","University of Waterloo, Canada","Department of Mathematics, National University of Singapore","Academy of Mathematics and Systems Science, Chinese Academy of Sciences, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and the Computational Biology Programme, National University of Singapore","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Department of Mathematics and Computational Biology Programme, National University of Singapore, Singapore 119076","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"University of Waterloo, Canada","institution_ids":["https://openalex.org/I151746483"]},{"raw_affiliation_string":"Department of Mathematics, National University of Singapore","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Academy of Mathematics and Systems Science, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210120485"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012300835","display_name":"Louxin Zhang","orcid":"https://orcid.org/0000-0003-0260-824X"},"institutions":[{"id":"https://openalex.org/I151746483","display_name":"University of Waterloo","ror":"https://ror.org/01aff2v68","country_code":"CA","type":"education","lineage":["https://openalex.org/I151746483"]},{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I19820366","display_name":"Chinese Academy of Sciences","ror":"https://ror.org/034t30j35","country_code":"CN","type":"government","lineage":["https://openalex.org/I19820366"]},{"id":"https://openalex.org/I4210120485","display_name":"Academy of Mathematics and Systems Science","ror":"https://ror.org/02jkmyk67","country_code":"CN","type":"facility","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210120485"]}],"countries":["CA","CN","SG"],"is_corresponding":true,"raw_author_name":"Louxin Zhang","raw_affiliation_strings":["Corresponding author: Louxin Zhang, Department of Mathematics and Computational Biology Programme, National University of Singapore 119076, Singapore. Tel.: +65-65166579","University of Waterloo, Canada","Department of Mathematics, National University of Singapore","Academy of Mathematics and Systems Science, Chinese Academy of Sciences, China","Department of Mathematics and Computational Biology Programme, National University of Singapore, Singapore 119076","Department of Mathematics and the Computational Biology Programme, National University of Singapore"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Corresponding author: Louxin Zhang, Department of Mathematics and Computational Biology Programme, National University of Singapore 119076, Singapore. Tel.: +65-65166579","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"University of Waterloo, Canada","institution_ids":["https://openalex.org/I151746483"]},{"raw_affiliation_string":"Department of Mathematics, National University of Singapore","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Academy of Mathematics and Systems Science, Chinese Academy of Sciences, China","institution_ids":["https://openalex.org/I19820366","https://openalex.org/I4210120485"]},{"raw_affiliation_string":"Department of Mathematics and Computational Biology Programme, National University of Singapore, Singapore 119076","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Department of Mathematics and the Computational Biology Programme, National University of Singapore","institution_ids":["https://openalex.org/I165932596"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5012300835"],"corresponding_institution_ids":["https://openalex.org/I151746483","https://openalex.org/I165932596","https://openalex.org/I19820366","https://openalex.org/I4210120485"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.8623,"has_fulltext":true,"cited_by_count":94,"citation_normalized_percentile":{"value":0.96741808,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"22","issue":"1","first_page":"232","last_page":"246"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"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":1.0,"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/T11948","display_name":"Machine Learning in Materials Science","score":0.9958000183105469,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9937999844551086,"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/drug-response","display_name":"Drug response","score":0.874214768409729},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5850284695625305},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5569700598716736},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.5236632227897644},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4224846363067627},{"id":"https://openalex.org/keywords/personalized-medicine","display_name":"Personalized medicine","score":0.4129730463027954},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3798680305480957},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33544397354125977},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3201913833618164},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2421436607837677},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13521364331245422},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.13019192218780518}],"concepts":[{"id":"https://openalex.org/C2994119904","wikidata":"https://www.wikidata.org/wiki/Q1251001","display_name":"Drug response","level":3,"score":0.874214768409729},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5850284695625305},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5569700598716736},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.5236632227897644},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4224846363067627},{"id":"https://openalex.org/C32220436","wikidata":"https://www.wikidata.org/wiki/Q2072214","display_name":"Personalized medicine","level":2,"score":0.4129730463027954},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3798680305480957},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33544397354125977},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3201913833618164},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2421436607837677},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13521364331245422},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.13019192218780518}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004351","descriptor_name":"Drug Resistance","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004351","descriptor_name":"Drug Resistance","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004351","descriptor_name":"Drug Resistance","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057285","descriptor_name":"Precision Medicine","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbz164","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbz164","pdf_url":"https://academic.oup.com/bib/article-pdf/22/1/232/35934931/bbz164.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31927568","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31927568","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bib/bbz164","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbz164","pdf_url":"https://academic.oup.com/bib/article-pdf/22/1/232/35934931/bbz164.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.6700000166893005}],"awards":[{"id":"https://openalex.org/G778910513","display_name":null,"funder_award_id":"NRF2016NRF-NSFC001-026","funder_id":"https://openalex.org/F4320321038","funder_display_name":"Fonds National de la Recherche Luxembourg"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320321038","display_name":"Fonds National de la Recherche Luxembourg","ror":"https://ror.org/039z13y21"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3000373012.pdf","grobid_xml":"https://content.openalex.org/works/W3000373012.grobid-xml"},"referenced_works_count":59,"referenced_works":["https://openalex.org/W1503398984","https://openalex.org/W1510073064","https://openalex.org/W1920328734","https://openalex.org/W1964009822","https://openalex.org/W1989129581","https://openalex.org/W2011474181","https://openalex.org/W2043398720","https://openalex.org/W2056636001","https://openalex.org/W2069870183","https://openalex.org/W2087312216","https://openalex.org/W2099297532","https://openalex.org/W2108933868","https://openalex.org/W2120064876","https://openalex.org/W2120204563","https://openalex.org/W2122825543","https://openalex.org/W2125789330","https://openalex.org/W2159887157","https://openalex.org/W2163424852","https://openalex.org/W2164298117","https://openalex.org/W2187215566","https://openalex.org/W2197234859","https://openalex.org/W2197241765","https://openalex.org/W2214074259","https://openalex.org/W2220553089","https://openalex.org/W2286717935","https://openalex.org/W2293825098","https://openalex.org/W2432718434","https://openalex.org/W2501016862","https://openalex.org/W2508784321","https://openalex.org/W2513486311","https://openalex.org/W2735647642","https://openalex.org/W2742007096","https://openalex.org/W2771996273","https://openalex.org/W2773309042","https://openalex.org/W2777794149","https://openalex.org/W2792791113","https://openalex.org/W2800484633","https://openalex.org/W2805406480","https://openalex.org/W2807463161","https://openalex.org/W2808199968","https://openalex.org/W2887685819","https://openalex.org/W2899070097","https://openalex.org/W2911944089","https://openalex.org/W2911964244","https://openalex.org/W2913340405","https://openalex.org/W2917774954","https://openalex.org/W2921321912","https://openalex.org/W2921800758","https://openalex.org/W2949159188","https://openalex.org/W2950063908","https://openalex.org/W3021184943","https://openalex.org/W3098745759","https://openalex.org/W6600744685","https://openalex.org/W6640308425","https://openalex.org/W6677929958","https://openalex.org/W6684390987","https://openalex.org/W6724219016","https://openalex.org/W6725727415","https://openalex.org/W6760273763"],"related_works":["https://openalex.org/W1997438133","https://openalex.org/W1508732282","https://openalex.org/W2159063798","https://openalex.org/W2068142083","https://openalex.org/W3154648057","https://openalex.org/W2758791195","https://openalex.org/W2999563835","https://openalex.org/W2609331662","https://openalex.org/W2321880618","https://openalex.org/W2353292232"],"abstract_inverted_index":{"Drug":[0],"response":[1,47,79,109],"prediction":[2],"arises":[3],"from":[4],"both":[5],"basic":[6],"and":[7,24,36,57,102],"clinical":[8],"research":[9,106],"of":[10,55],"personalized":[11],"therapy,":[12],"as":[13,15],"well":[14],"drug":[16,46,78,108],"discovery":[17],"for":[18,30,77,104],"cancers.":[19],"With":[20],"gene":[21],"expression":[22],"profiles":[23],"other":[25],"omics":[26],"data":[27],"being":[28],"available":[29],"over":[31],"1000":[32],"cancer":[33],"cell":[34],"lines":[35],"tissues,":[37],"different":[38,62],"machine":[39],"learning":[40],"approaches":[41],"have":[42,58,82],"been":[43,59,83],"applied":[44],"to":[45],"prediction.":[48,110],"These":[49],"methods":[50,76],"appear":[51],"in":[52,85,95],"a":[53],"body":[54],"literature":[56],"evaluated":[60],"on":[61,90],"datasets":[63,94],"with":[64],"only":[65],"one":[66],"or":[67],"two":[68],"accuracy":[69],"metrics.":[70,97],"We":[71],"systematically":[72],"assess":[73],"17":[74],"representative":[75],"prediction,":[80],"which":[81],"developed":[84],"the":[86],"past":[87],"5":[88],"years,":[89],"four":[91],"large":[92],"public":[93],"nine":[96],"This":[98],"study":[99],"provides":[100],"insights":[101],"lessons":[103],"future":[105],"into":[107]},"counts_by_year":[{"year":2026,"cited_by_count":10},{"year":2025,"cited_by_count":12},{"year":2024,"cited_by_count":21},{"year":2023,"cited_by_count":18},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":19},{"year":2020,"cited_by_count":6}],"updated_date":"2026-07-27T08:26:11.824852","created_date":"2025-10-10T00:00:00"}
