{"id":"https://openalex.org/W4409560916","doi":"https://doi.org/10.1109/jbhi.2025.3561887","title":"Enhancing Drug Synergy Combination: Integrating Graph Transformers and BiLSTM for Accurate Drug Synergy Prediction","display_name":"Enhancing Drug Synergy Combination: Integrating Graph Transformers and BiLSTM for Accurate Drug Synergy Prediction","publication_year":2025,"publication_date":"2025-04-17","ids":{"openalex":"https://openalex.org/W4409560916","doi":"https://doi.org/10.1109/jbhi.2025.3561887","pmid":"https://pubmed.ncbi.nlm.nih.gov/40244836"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2025.3561887","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2025.3561887","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Bin Sun","orcid":"https://orcid.org/0009-0004-6516-5276"},"institutions":[{"id":"https://openalex.org/I4210114043","display_name":"Henan Institute of Technology","ror":"https://ror.org/024f5m737","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210114043"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Bin Sun","raw_affiliation_strings":["School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China"],"raw_orcid":"https://orcid.org/0009-0004-6516-5276","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","institution_ids":["https://openalex.org/I4210114043"]},{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China","institution_ids":["https://openalex.org/I4210114043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005532606","display_name":"Haoze Du","orcid":"https://orcid.org/0009-0006-2837-9421"},"institutions":[{"id":"https://openalex.org/I137902535","display_name":"North Carolina State University","ror":"https://ror.org/04tj63d06","country_code":"US","type":"education","lineage":["https://openalex.org/I137902535"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Haoze Du","raw_affiliation_strings":["Department of Computer Science, North Carolina State University, Raleigh, NC, USA","Department of Computer Science, North Carolina State University, Raleigh, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, North Carolina State University, Raleigh, NC, USA","institution_ids":["https://openalex.org/I137902535"]},{"raw_affiliation_string":"Department of Computer Science, North Carolina State University, Raleigh, USA","institution_ids":["https://openalex.org/I137902535"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Shumei Hou","orcid":null},"institutions":[{"id":"https://openalex.org/I4210114043","display_name":"Henan Institute of Technology","ror":"https://ror.org/024f5m737","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210114043"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shumei Hou","raw_affiliation_strings":["School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","institution_ids":["https://openalex.org/I4210114043"]},{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China","institution_ids":["https://openalex.org/I4210114043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065999121","display_name":"Qingkai Hu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210114043","display_name":"Henan Institute of Technology","ror":"https://ror.org/024f5m737","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210114043"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingkai Hu","raw_affiliation_strings":["School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China"],"raw_orcid":"https://orcid.org/0009-0005-2227-6731","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","institution_ids":["https://openalex.org/I4210114043"]},{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China","institution_ids":["https://openalex.org/I4210114043"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Xiaoxiao Pang","orcid":"https://orcid.org/0009-0003-3073-6684"},"institutions":[{"id":"https://openalex.org/I4210114043","display_name":"Henan Institute of Technology","ror":"https://ror.org/024f5m737","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210114043"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoxiao Pang","raw_affiliation_strings":["School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China"],"raw_orcid":"https://orcid.org/0009-0003-3073-6684","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","institution_ids":["https://openalex.org/I4210114043"]},{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China","institution_ids":["https://openalex.org/I4210114043"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041491902","display_name":"Dong\u2010Qing Wei","orcid":"https://orcid.org/0000-0003-4200-7502"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongqing Wei","raw_affiliation_strings":["State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0003-4200-7502","affiliations":[{"raw_affiliation_string":"State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026708856","display_name":"Xianfang Wang","orcid":"https://orcid.org/0000-0001-8355-1470"},"institutions":[{"id":"https://openalex.org/I4210114043","display_name":"Henan Institute of Technology","ror":"https://ror.org/024f5m737","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210114043"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xianfang Wang","raw_affiliation_strings":["School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China"],"raw_orcid":"https://orcid.org/0000-0001-8355-1470","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, China","institution_ids":["https://openalex.org/I4210114043"]},{"raw_affiliation_string":"School of Computer Science and Technology, Henan Institute of Technology, Xinxiang, Henan, China","institution_ids":["https://openalex.org/I4210114043"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":8.7345,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.98006908,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"29","issue":"11","first_page":"7922","last_page":"7931"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9998999834060669,"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":0.9757999777793884,"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/T10908","display_name":"Analytical Chemistry and Chromatography","score":0.9460999965667725,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6567208170890808},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.6333677172660828},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3439001441001892},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.24090993404388428},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.20436859130859375}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6567208170890808},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.6333677172660828},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3439001441001892},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.24090993404388428},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.20436859130859375}],"mesh":[{"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":"D004357","descriptor_name":"Drug Synergism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004357","descriptor_name":"Drug Synergism","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004357","descriptor_name":"Drug Synergism","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/jbhi.2025.3561887","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2025.3561887","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:40244836","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40244836","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":"IEEE journal of biomedical and health informatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2191216477","display_name":null,"funder_award_id":"32030063","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3907687336","display_name":"\u57fa\u4e8e\u591a\u6e90\u5f02\u6784\u6570\u636e\u7684\u4eba\u7c7b\u51a0\u72b6\u75c5\u6bd2\u836f\u7269\u534f\u540c\u91cd\u5b9a\u4f4d\u5173\u952e\u6280\u672f\u7814\u7a76","funder_award_id":"62072157","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5674463089","display_name":null,"funder_award_id":"202300410102","funder_id":"https://openalex.org/F4320323845","funder_display_name":"Natural Science Foundation of Henan Province"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320323845","display_name":"Natural Science Foundation of Henan Province","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W1975147762","https://openalex.org/W1982551127","https://openalex.org/W2003220951","https://openalex.org/W2033591223","https://openalex.org/W2036291018","https://openalex.org/W2043398720","https://openalex.org/W2061061337","https://openalex.org/W2061136308","https://openalex.org/W2064675550","https://openalex.org/W2079735306","https://openalex.org/W2108068107","https://openalex.org/W2140595402","https://openalex.org/W2141831115","https://openalex.org/W2174991771","https://openalex.org/W2209382794","https://openalex.org/W2299417213","https://openalex.org/W2344726805","https://openalex.org/W2540423520","https://openalex.org/W2571957366","https://openalex.org/W2605336808","https://openalex.org/W2774112395","https://openalex.org/W2775061087","https://openalex.org/W2901638067","https://openalex.org/W2951449549","https://openalex.org/W2955796858","https://openalex.org/W2963441585","https://openalex.org/W2983877246","https://openalex.org/W2994537342","https://openalex.org/W3086347240","https://openalex.org/W3144812654","https://openalex.org/W3167140978","https://openalex.org/W3187966659","https://openalex.org/W3196304395","https://openalex.org/W3203908308","https://openalex.org/W3215573483","https://openalex.org/W4214530112","https://openalex.org/W4220998111","https://openalex.org/W4317211520","https://openalex.org/W4318150241","https://openalex.org/W4380786758","https://openalex.org/W4386022694","https://openalex.org/W4389856652","https://openalex.org/W4410949639"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Combination":[0],"therapy":[1],"of":[2,28,69,75,82,105,111,129,159],"drugs":[3,70],"showed":[4],"significant":[5],"potential":[6],"in":[7,25,151,174],"treating":[8],"complex":[9],"diseases":[10],"by":[11],"overcoming":[12],"drug":[13,40,52,83,112],"resistance":[14],"and":[15,33,62,71,90,126,153,161],"improving":[16],"therapeutic":[17],"efficacy.":[18],"However,":[19],"due":[20],"to":[21,64,97],"the":[22,26,31,66,86,94,146],"rapid":[23],"increase":[24],"number":[27],"available":[29],"drugs,":[30],"cost":[32],"time":[34],"required":[35],"for":[36],"experimentally":[37],"screening":[38],"synergistic":[39],"combinations":[41],"became":[42],"increasingly":[43],"burdensome.":[44],"In":[45],"this":[46],"work,":[47],"we":[48],"proposed":[49],"a":[50,117,157],"novel":[51],"synergy":[53,113],"prediction":[54,110,168],"model":[55,123,164],"called":[56],"GraphTranSynergy,":[57],"which":[58],"utilized":[59],"graph":[60,87],"transformer":[61,88],"BiLSTM":[63,95],"capture":[65],"molecular":[67],"structure":[68],"gene":[72,102],"expression":[73,103],"features":[74,81,100],"cell":[76,106],"lines.":[77,107],"GraphTranSynergy":[78,140],"extracted":[79],"graphical":[80],"pairs":[84],"through":[85,116],"module":[89,96],"integrated":[91],"information":[92],"from":[93,101],"extract":[98],"useful":[99],"profiles":[104],"The":[108],"final":[109],"was":[114],"made":[115],"fully":[118],"connected":[119],"neural":[120],"network.":[121],"Our":[122],"achieved":[124],"AUC":[125],"PRAUC":[127],"scores":[128],"0.94,":[130],"outperforming":[131],"most":[132],"existing":[133],"models.":[134],"Independent":[135],"test":[136],"results":[137],"demonstrated":[138,172],"that":[139],"exhibited":[141],"superior":[142],"generalization":[143],"ability":[144],"on":[145],"AstraZeneca":[147],"dataset,":[148],"particularly":[149],"excelling":[150],"ACC":[152],"TPR":[154],"metrics.":[155],"Through":[156],"series":[158],"experiments":[160],"analyses,":[162],"our":[163],"not":[165],"only":[166],"improved":[167],"accuracy":[169],"but":[170],"also":[171],"advantages":[173],"biological":[175],"interpretability.":[176]},"counts_by_year":[{"year":2026,"cited_by_count":8},{"year":2025,"cited_by_count":3}],"updated_date":"2026-07-16T13:24:37.021932","created_date":"2025-10-10T00:00:00"}
