{"id":"https://openalex.org/W4394728976","doi":"https://doi.org/10.1093/bib/bbae153","title":"Improving drug response prediction via integrating gene relationships with deep learning","display_name":"Improving drug response prediction via integrating gene relationships with deep learning","publication_year":2024,"publication_date":"2024-03-27","ids":{"openalex":"https://openalex.org/W4394728976","doi":"https://doi.org/10.1093/bib/bbae153","pmid":"https://pubmed.ncbi.nlm.nih.gov/38600666"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae153","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae153","pdf_url":"https://academic.oup.com/bib/article-pdf/25/3/bbae153/57189144/bbae153.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bib/article-pdf/25/3/bbae153/57189144/bbae153.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036428356","display_name":"Pengyong Li","orcid":"https://orcid.org/0000-0001-5971-046X"},"institutions":[{"id":"https://openalex.org/I51622183","display_name":"Shaanxi University of Science and Technology","ror":"https://ror.org/034t3zs45","country_code":"CN","type":"education","lineage":["https://openalex.org/I51622183"]},{"id":"https://openalex.org/I4210104453","display_name":"Shaanxi Science and Technology Department","ror":"https://ror.org/01c2sx728","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210104453","https://openalex.org/I4210120069","https://openalex.org/I4210127390"]},{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]},{"id":"https://openalex.org/I111950717","display_name":"Macau University of Science and Technology","ror":"https://ror.org/03jqs2n27","country_code":"MO","type":"education","lineage":["https://openalex.org/I111950717","https://openalex.org/I4391767947"]}],"countries":["CN","MO"],"is_corresponding":false,"raw_author_name":"Pengyong Li","raw_affiliation_strings":["Macau University of Science and Technology , Macau Institute for Applied Research in Medicine and Health, , 519020 Macau , China","School of Computer Science and Technology , , 710126 Xi\u2019an, Shaanxi , China","State Key Laboratory of Quality Research in Chinese Medicine , Macau Institute for Applied Research in Medicine and Health, , 519020 Macau , China","Xidian University , , 710126 Xi\u2019an, Shaanxi , China","State Key Laboratory of Quality Research in Chinese Medicine, Macau Institute for Applied Research in Medicine and Health, Macau University of Science and Technology, 519020 Macau, China","School of Computer Science and Technology,Xidian University, 710126 Xi'an, Shaanxi, China"],"affiliations":[{"raw_affiliation_string":"Macau University of Science and Technology , Macau Institute for Applied Research in Medicine and Health, , 519020 Macau , China","institution_ids":["https://openalex.org/I111950717"]},{"raw_affiliation_string":"School of Computer Science and Technology , , 710126 Xi\u2019an, Shaanxi , China","institution_ids":["https://openalex.org/I4210104453","https://openalex.org/I51622183"]},{"raw_affiliation_string":"State Key Laboratory of Quality Research in Chinese Medicine , Macau Institute for Applied Research in Medicine and Health, , 519020 Macau , China","institution_ids":[]},{"raw_affiliation_string":"Xidian University , , 710126 Xi\u2019an, Shaanxi , China","institution_ids":["https://openalex.org/I149594827"]},{"raw_affiliation_string":"State Key Laboratory of Quality Research in Chinese Medicine, Macau Institute for Applied Research in Medicine and Health, Macau University of Science and Technology, 519020 Macau, China","institution_ids":["https://openalex.org/I111950717"]},{"raw_affiliation_string":"School of Computer Science and Technology,Xidian University, 710126 Xi'an, Shaanxi, China","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102647411","display_name":"Zhengxiang Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhengxiang Jiang","raw_affiliation_strings":["School of Electronic Engineering, Xidian University , 710126 Xi\u2019an, Shaanxi , China"],"affiliations":[{"raw_affiliation_string":"School of Electronic Engineering, Xidian University , 710126 Xi\u2019an, Shaanxi , China","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046037333","display_name":"Tianxiao Liu","orcid":"https://orcid.org/0000-0001-5050-8804"},"institutions":[{"id":"https://openalex.org/I4210104453","display_name":"Shaanxi Science and Technology Department","ror":"https://ror.org/01c2sx728","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210104453","https://openalex.org/I4210120069","https://openalex.org/I4210127390"]},{"id":"https://openalex.org/I149594827","display_name":"Xidian University","ror":"https://ror.org/05s92vm98","country_code":"CN","type":"education","lineage":["https://openalex.org/I149594827"]},{"id":"https://openalex.org/I51622183","display_name":"Shaanxi University of Science and Technology","ror":"https://ror.org/034t3zs45","country_code":"CN","type":"education","lineage":["https://openalex.org/I51622183"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tianxiao Liu","raw_affiliation_strings":["School of Computer Science and Technology , , 710126 Xi\u2019an, Shaanxi , China","Xidian University , , 710126 Xi\u2019an, Shaanxi , China","School of Computer Science and Technology,Xidian University, 710126 Xi'an, Shaanxi, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology , , 710126 Xi\u2019an, Shaanxi , China","institution_ids":["https://openalex.org/I4210104453","https://openalex.org/I51622183"]},{"raw_affiliation_string":"Xidian University , , 710126 Xi\u2019an, Shaanxi , China","institution_ids":["https://openalex.org/I149594827"]},{"raw_affiliation_string":"School of Computer Science and Technology,Xidian University, 710126 Xi'an, Shaanxi, China","institution_ids":["https://openalex.org/I149594827"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100406086","display_name":"Xinyu Liu","orcid":"https://orcid.org/0000-0001-7495-442X"},"institutions":[{"id":"https://openalex.org/I4210087417","display_name":"Beijing Geriatric Hospital","ror":"https://ror.org/010ern194","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210087417"]},{"id":"https://openalex.org/I20231570","display_name":"Peking University","ror":"https://ror.org/02v51f717","country_code":"CN","type":"education","lineage":["https://openalex.org/I20231570"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xinyu Liu","raw_affiliation_strings":["Beijing Laboratory of Biomedical Materials , Department of Geriatric Dentistry, , 100081 Beijing , China","Peking University School and Hospital of Stomatology , Department of Geriatric Dentistry, , 100081 Beijing , China","Beijing Laboratory of Biomedical Materials, Department of Geriatric Dentistry, Peking University School and Hospital of Stomatology, 100081 Beijing, China"],"affiliations":[{"raw_affiliation_string":"Beijing Laboratory of Biomedical Materials , Department of Geriatric Dentistry, , 100081 Beijing , China","institution_ids":["https://openalex.org/I4210087417"]},{"raw_affiliation_string":"Peking University School and Hospital of Stomatology , Department of Geriatric Dentistry, , 100081 Beijing , China","institution_ids":["https://openalex.org/I20231570"]},{"raw_affiliation_string":"Beijing Laboratory of Biomedical Materials, Department of Geriatric Dentistry, Peking University School and Hospital of Stomatology, 100081 Beijing, China","institution_ids":["https://openalex.org/I20231570"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100648567","display_name":"Hui Qiao","orcid":"https://orcid.org/0000-0002-4896-8657"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hui Qiao","raw_affiliation_strings":["Department of Oncology, Tai\u2019an Municipal Hospital , 271021 Tai\u2019an, Shandong , China"],"affiliations":[{"raw_affiliation_string":"Department of Oncology, Tai\u2019an Municipal Hospital , 271021 Tai\u2019an, Shandong , China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101655869","display_name":"Xiaojun Yao","orcid":"https://orcid.org/0000-0001-9958-8438"},"institutions":[{"id":"https://openalex.org/I49835588","display_name":"Macao Polytechnic University","ror":"https://ror.org/02sf5td35","country_code":"MO","type":"education","lineage":["https://openalex.org/I49835588"]},{"id":"https://openalex.org/I4210164862","display_name":"Artificial Intelligence in Medicine (Canada)","ror":"https://ror.org/05p590m36","country_code":"CA","type":"company","lineage":["https://openalex.org/I4210164862"]}],"countries":["CA","MO"],"is_corresponding":true,"raw_author_name":"Xiaojun Yao","raw_affiliation_strings":["Centre for Artificial Intelligence Driven Drug Discovery , Faculty of Applied Sciences, , 999078 Macao , China","Macao Polytechnic University , Faculty of Applied Sciences, , 999078 Macao , China","Centre for Artificial Intelligence Driven Drug Discovery, Faculty of Applied Sciences, Macao Polytechnic University, 999078 Macao, China"],"affiliations":[{"raw_affiliation_string":"Centre for Artificial Intelligence Driven Drug Discovery , Faculty of Applied Sciences, , 999078 Macao , China","institution_ids":["https://openalex.org/I4210164862"]},{"raw_affiliation_string":"Macao Polytechnic University , Faculty of Applied Sciences, , 999078 Macao , China","institution_ids":["https://openalex.org/I49835588"]},{"raw_affiliation_string":"Centre for Artificial Intelligence Driven Drug Discovery, Faculty of Applied Sciences, Macao Polytechnic University, 999078 Macao, China","institution_ids":["https://openalex.org/I49835588"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5101655869"],"corresponding_institution_ids":["https://openalex.org/I4210164862","https://openalex.org/I49835588"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":6.2654,"has_fulltext":true,"cited_by_count":27,"citation_normalized_percentile":{"value":0.97344402,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"25","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9994999766349792,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5445080995559692},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.5390922427177429},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5243911147117615},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5042451620101929},{"id":"https://openalex.org/keywords/drug-response","display_name":"Drug response","score":0.45664235949516296},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44859352707862854},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4256364703178406},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.41722187399864197},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.382305383682251},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.34207621216773987},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3257758617401123},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21876290440559387},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.10583126544952393}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5445080995559692},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.5390922427177429},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5243911147117615},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5042451620101929},{"id":"https://openalex.org/C2994119904","wikidata":"https://www.wikidata.org/wiki/Q1251001","display_name":"Drug response","level":3,"score":0.45664235949516296},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44859352707862854},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4256364703178406},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.41722187399864197},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.382305383682251},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.34207621216773987},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3257758617401123},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21876290440559387},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.10583126544952393},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","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":"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae153","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae153","pdf_url":"https://academic.oup.com/bib/article-pdf/25/3/bbae153/57189144/bbae153.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38600666","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38600666","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},{"id":"pmh:oai:pubmedcentral.nih.gov:11006795","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11006795","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae153","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae153","pdf_url":"https://academic.oup.com/bib/article-pdf/25/3/bbae153/57189144/bbae153.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","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","score":0.5400000214576721,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G2087396116","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2376276132","display_name":null,"funder_award_id":"China","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G268992786","display_name":null,"funder_award_id":"U22A2037","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3317480652","display_name":null,"funder_award_id":"Science","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5644188678","display_name":null,"funder_award_id":"62202353","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5994120800","display_name":null,"funder_award_id":"Natural","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7033253288","display_name":null,"funder_award_id":"Grants","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8951484681","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4394728976.pdf"},"referenced_works_count":72,"referenced_works":["https://openalex.org/W1577822803","https://openalex.org/W1896195310","https://openalex.org/W1975147762","https://openalex.org/W1979189074","https://openalex.org/W2024722675","https://openalex.org/W2025644430","https://openalex.org/W2043398720","https://openalex.org/W2046588282","https://openalex.org/W2060842569","https://openalex.org/W2063280109","https://openalex.org/W2091091750","https://openalex.org/W2096173332","https://openalex.org/W2102921564","https://openalex.org/W2108068107","https://openalex.org/W2124575784","https://openalex.org/W2129437303","https://openalex.org/W2133102806","https://openalex.org/W2152060958","https://openalex.org/W2156669671","https://openalex.org/W2269040222","https://openalex.org/W2525265150","https://openalex.org/W2743416243","https://openalex.org/W2804079128","https://openalex.org/W2919115771","https://openalex.org/W2942173509","https://openalex.org/W2951885137","https://openalex.org/W2963608065","https://openalex.org/W2972223935","https://openalex.org/W2996474037","https://openalex.org/W2997574889","https://openalex.org/W3000373012","https://openalex.org/W3004974539","https://openalex.org/W3006914383","https://openalex.org/W3007745092","https://openalex.org/W3019745511","https://openalex.org/W3035604179","https://openalex.org/W3036044090","https://openalex.org/W3097029961","https://openalex.org/W3107128738","https://openalex.org/W3120610311","https://openalex.org/W3137482466","https://openalex.org/W3159560895","https://openalex.org/W3163739989","https://openalex.org/W3179111421","https://openalex.org/W3186348651","https://openalex.org/W3187647935","https://openalex.org/W3190422678","https://openalex.org/W3200762293","https://openalex.org/W3201172435","https://openalex.org/W3207132291","https://openalex.org/W4200089627","https://openalex.org/W4200171225","https://openalex.org/W4200571052","https://openalex.org/W4205300020","https://openalex.org/W4206413989","https://openalex.org/W4297387432","https://openalex.org/W4300861664","https://openalex.org/W4310213180","https://openalex.org/W4312214400","https://openalex.org/W4313889797","https://openalex.org/W4320920782","https://openalex.org/W4367312557","https://openalex.org/W4385245566","https://openalex.org/W6656781848","https://openalex.org/W6681096077","https://openalex.org/W6739901393","https://openalex.org/W6742137933","https://openalex.org/W6804510830","https://openalex.org/W6805215619","https://openalex.org/W6805257049","https://openalex.org/W6806731570","https://openalex.org/W6846577246"],"related_works":["https://openalex.org/W4375867731","https://openalex.org/W2770593030","https://openalex.org/W2611989081","https://openalex.org/W3154990682","https://openalex.org/W2560201613","https://openalex.org/W2171975302","https://openalex.org/W2022352247","https://openalex.org/W4230611425","https://openalex.org/W1997438133","https://openalex.org/W2321880618"],"abstract_inverted_index":{"Predicting":[0],"the":[1,70,88,122,138,146,151,155,159,165,174],"drug":[2,95],"response":[3,96,114,134,141,153],"of":[4,73,90,124,154,167],"cancer":[5,13,182],"cell":[6,117],"lines":[7],"is":[8],"crucial":[9],"for":[10,112,181],"advancing":[11],"personalized":[12],"treatment,":[14],"yet":[15],"remains":[16],"challenging":[17],"due":[18],"to":[19,47,62,76,104,135,145,158,176],"tumor":[20],"heterogeneity":[21],"and":[22,59,66,82,85,116],"individual":[23],"diversity.":[24],"In":[25,98],"this":[26],"study,":[27],"we":[28,120],"present":[29],"a":[30,132],"deep":[31],"learning-based":[32],"framework":[33],"named":[34],"Deep":[35],"neural":[36],"network":[37],"Integrating":[38],"Prior":[39],"Knowledge":[40],"(DIPK)":[41],"(DIPK),":[42],"which":[43],"adopts":[44],"self-supervised":[45],"techniques":[46],"integrate":[48],"multiple":[49],"valuable":[50],"information,":[51],"including":[52],"gene":[53,56,91],"interaction":[54,92],"relationships,":[55],"expression":[57],"profiles":[58],"molecular":[60],"topologies,":[61],"enhance":[63,177],"prediction":[64,115],"accuracy":[65],"robustness.":[67],"We":[68,162],"demonstrated":[69],"superior":[71],"performance":[72],"DIPK":[74,100,125,129,168],"compared":[75,144],"existing":[77],"methods":[78],"on":[79,126],"both":[80],"known":[81],"novel":[83],"cells":[84],"drugs,":[86],"underscoring":[87],"importance":[89],"relationships":[93],"in":[94,137],"prediction.":[97],"addition,":[99],"extends":[101],"its":[102,110],"applicability":[103,123],"single-cell":[105],"RNA":[106],"sequencing":[107],"data,":[108],"showcasing":[109],"capability":[111],"single-cell-level":[113],"identification.":[118],"Further,":[119],"assess":[121],"clinical":[127,170],"data.":[128],"accurately":[130],"predicted":[131],"higher":[133],"paclitaxel":[136],"pathological":[139],"complete":[140],"(pCR)":[142],"group":[143,157],"residual":[147],"disease":[148],"group,":[149],"affirming":[150],"better":[152],"pCR":[156],"chemotherapy":[160],"compound.":[161],"believe":[163],"that":[164],"integration":[166],"into":[169],"decision-making":[171],"processes":[172],"has":[173],"potential":[175],"individualized":[178],"treatment":[179],"strategies":[180],"patients.":[183]},"counts_by_year":[{"year":2026,"cited_by_count":9},{"year":2025,"cited_by_count":15},{"year":2024,"cited_by_count":3}],"updated_date":"2026-04-02T15:55:50.835912","created_date":"2025-10-10T00:00:00"}
