{"id":"https://openalex.org/W4398764918","doi":"https://doi.org/10.1109/tcbb.2024.3404889","title":"ParaCPI: A Parallel Graph Convolutional Network for Compound-Protein Interaction Prediction","display_name":"ParaCPI: A Parallel Graph Convolutional Network for Compound-Protein Interaction Prediction","publication_year":2024,"publication_date":"2024-05-24","ids":{"openalex":"https://openalex.org/W4398764918","doi":"https://doi.org/10.1109/tcbb.2024.3404889","pmid":"https://pubmed.ncbi.nlm.nih.gov/38787671"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2024.3404889","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2024.3404889","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"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/ACM Transactions on Computational Biology and Bioinformatics","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":"https://openalex.org/A5084959175","display_name":"Longxin Zhang","orcid":"https://orcid.org/0000-0002-4413-9974"},"institutions":[{"id":"https://openalex.org/I49934816","display_name":"Hunan University of Technology","ror":"https://ror.org/04j3vr751","country_code":"CN","type":"education","lineage":["https://openalex.org/I49934816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Longxin Zhang","raw_affiliation_strings":["College of Computer Science, Hunan University of Technology, Zhuzhou, China"],"raw_orcid":"https://orcid.org/0000-0002-4413-9974","affiliations":[{"raw_affiliation_string":"College of Computer Science, Hunan University of Technology, Zhuzhou, China","institution_ids":["https://openalex.org/I49934816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103197189","display_name":"Wenliang Zeng","orcid":"https://orcid.org/0000-0003-3671-1683"},"institutions":[{"id":"https://openalex.org/I49934816","display_name":"Hunan University of Technology","ror":"https://ror.org/04j3vr751","country_code":"CN","type":"education","lineage":["https://openalex.org/I49934816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenliang Zeng","raw_affiliation_strings":["College of Computer Science, Hunan University of Technology, Zhuzhou, China"],"raw_orcid":"https://orcid.org/0000-0003-3671-1683","affiliations":[{"raw_affiliation_string":"College of Computer Science, Hunan University of Technology, Zhuzhou, China","institution_ids":["https://openalex.org/I49934816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101662973","display_name":"Jingsheng Chen","orcid":"https://orcid.org/0000-0002-2432-5673"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]},{"id":"https://openalex.org/I49934816","display_name":"Hunan University of Technology","ror":"https://ror.org/04j3vr751","country_code":"CN","type":"education","lineage":["https://openalex.org/I49934816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingsheng Chen","raw_affiliation_strings":["College of Computer Science, Hunan University of Technology, Zhuzhou, China","School of Software Engineering, Sun Yat-Sen University, Zhuhai, Guangdong, China"],"raw_orcid":"https://orcid.org/0000-0002-2432-5673","affiliations":[{"raw_affiliation_string":"College of Computer Science, Hunan University of Technology, Zhuzhou, China","institution_ids":["https://openalex.org/I49934816"]},{"raw_affiliation_string":"School of Software Engineering, Sun Yat-Sen University, Zhuhai, Guangdong, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100435599","display_name":"Jianguo Chen","orcid":"https://orcid.org/0000-0001-5009-578X"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]},{"id":"https://openalex.org/I49934816","display_name":"Hunan University of Technology","ror":"https://ror.org/04j3vr751","country_code":"CN","type":"education","lineage":["https://openalex.org/I49934816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianguo Chen","raw_affiliation_strings":["College of Computer Science, Hunan University of Technology, Zhuzhou, China","School of Software Engineering, Sun Yat-Sen University, Zhuhai, Guangdong, China"],"raw_orcid":"https://orcid.org/0000-0001-5009-578X","affiliations":[{"raw_affiliation_string":"College of Computer Science, Hunan University of Technology, Zhuzhou, China","institution_ids":["https://openalex.org/I49934816"]},{"raw_affiliation_string":"School of Software Engineering, Sun Yat-Sen University, Zhuhai, Guangdong, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087894632","display_name":"Keqin Li","orcid":"https://orcid.org/0000-0001-5224-4048"},"institutions":[{"id":"https://openalex.org/I157455823","display_name":"SUNY New Paltz","ror":"https://ror.org/03j3dv688","country_code":"US","type":"education","lineage":["https://openalex.org/I157455823"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Keqin Li","raw_affiliation_strings":["Department of Computer Science, State University of New York, New Paltz, NY, USA"],"raw_orcid":"https://orcid.org/0000-0001-5224-4048","affiliations":[{"raw_affiliation_string":"Department of Computer Science, State University of New York, New Paltz, NY, USA","institution_ids":["https://openalex.org/I157455823"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2495,"currency":"USD","value_usd":2495},"apc_paid":null,"fwci":1.2091,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.80217807,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":98},"biblio":{"volume":"21","issue":"5","first_page":"1565","last_page":"1578"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9966999888420105,"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":0.9966999888420105,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9940999746322632,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9623000025749207,"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":0.6136969327926636},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5263020992279053},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34551966190338135},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.31922832131385803}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6136969327926636},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5263020992279053},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34551966190338135},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.31922832131385803}],"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":"D000465","descriptor_name":"Algorithms","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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbb.2024.3404889","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2024.3404889","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"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/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38787671","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38787671","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/ACM transactions on computational biology and bioinformatics","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1538366480","display_name":null,"funder_award_id":"62002110","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G1777909783","display_name":null,"funder_award_id":"2018YFB1003401","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G3788438719","display_name":null,"funder_award_id":"61702178","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4607282455","display_name":null,"funder_award_id":"62372486","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5040992507","display_name":"\u57fa\u4e8e\u673a\u5668\u5b66\u4e60\u7684\u65b0\u51a0\u80ba\u708e\u836f\u7269\u91cd\u5b9a\u4f4d\u7814\u7a76","funder_award_id":"62072172","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5716534903","display_name":null,"funder_award_id":"23B0560","funder_id":"https://openalex.org/F4320333642","funder_display_name":"Scientific Research Foundation of Hunan Provincial Education Department"},{"id":"https://openalex.org/G6333416552","display_name":null,"funder_award_id":"2023JJ50204","funder_id":"https://openalex.org/F4320322843","funder_display_name":"Natural Science Foundation of\u00a0Hunan Province"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322843","display_name":"Natural Science Foundation of\u00a0Hunan Province","ror":null},{"id":"https://openalex.org/F4320333642","display_name":"Scientific Research Foundation of Hunan Provincial Education Department","ror":null},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W579521957","https://openalex.org/W1975147762","https://openalex.org/W2031441006","https://openalex.org/W2134967712","https://openalex.org/W2139736926","https://openalex.org/W2148145769","https://openalex.org/W2153838454","https://openalex.org/W2259538443","https://openalex.org/W2344084644","https://openalex.org/W2785947426","https://openalex.org/W2860192827","https://openalex.org/W2899788782","https://openalex.org/W2918239264","https://openalex.org/W2948035163","https://openalex.org/W2997680655","https://openalex.org/W3005769002","https://openalex.org/W3018980093","https://openalex.org/W3028589594","https://openalex.org/W3096561213","https://openalex.org/W3107609030","https://openalex.org/W3109831221","https://openalex.org/W3157265962","https://openalex.org/W3165640073","https://openalex.org/W3167283626","https://openalex.org/W3206585172","https://openalex.org/W3216642120","https://openalex.org/W4205167309","https://openalex.org/W4210842338","https://openalex.org/W4283786398","https://openalex.org/W4307432689","https://openalex.org/W4310457446","https://openalex.org/W4319999782","https://openalex.org/W4391798323"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W2382290278","https://openalex.org/W4395014643"],"abstract_inverted_index":{"Identifying":[0],"compound-protein":[1],"interactions":[2],"(CPIs)":[3],"is":[4,73],"critical":[5],"in":[6,75,142,162],"drug":[7,23,59,196],"discovery,":[8],"as":[9],"accurate":[10],"prediction":[11,48,71],"of":[12,21,28,53,57,83,137,144,159],"CPIs":[13,92,173],"can":[14,190],"remarkably":[15],"reduce":[16],"the":[17,55,107,123,127,147,151,157,160,163,186,195],"time":[18],"and":[19,106,140,181],"cost":[20],"new":[22],"development.":[24],"The":[25],"rapid":[26],"growth":[27],"existing":[29,46],"biological":[30,39],"knowledge":[31,40],"has":[32],"opened":[33],"up":[34],"possibilities":[35],"for":[36,69],"leveraging":[37],"known":[38,94,176],"to":[41,89,121,170,193],"predict":[42,90,171],"unknown":[43,91,172],"CPIs.":[44],"However,":[45],"CPI":[47,70,95],"models":[49,115],"still":[50],"fall":[51],"short":[52],"meeting":[54],"needs":[56],"practical":[58],"discovery":[60,197],"applications.":[61],"A":[62],"novel":[63],"parallel":[64],"graph":[65],"convolutional":[66],"network":[67],"model":[68,79],"(ParaCPI)":[72],"proposed":[74],"this":[76],"study.":[77],"This":[78],"constructs":[80],"feature":[81],"representation":[82],"compounds":[84],"using":[85],"a":[86],"unique":[87],"approach":[88],"from":[93],"data":[96],"more":[97],"effectively.":[98],"Experiments":[99],"are":[100,109],"conducted":[101],"on":[102,175],"five":[103],"public":[104],"datasets,":[105],"results":[108,158],"compared":[110,149,184],"with":[111,150,178,185],"current":[112],"state-of-the-art":[113],"(SOTA)":[114],"under":[116,146],"three":[117,128],"different":[118],"experimental":[119],"settings":[120],"evaluate":[122],"model's":[124],"performance.":[125],"In":[126,155],"cold-start":[129],"settings,":[130],"ParaCPI":[131,192],"achieves":[132],"an":[133],"average":[134],"performance":[135],"gain":[136],"26.75%,":[138],"23.84%,":[139],"14.68%":[141],"terms":[143],"area":[145],"curve":[148],"other":[152],"SOTA":[153,187],"models.":[154,188],"addition,":[156],"experiments":[161],"case":[164],"study":[165],"show":[166],"ParaCPI's":[167],"superior":[168],"ability":[169],"based":[174],"data,":[177],"higher":[179],"accuracy":[180],"stronger":[182],"generalization":[183],"Researchers":[189],"leverage":[191],"accelerate":[194],"process.":[198]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4}],"updated_date":"2026-08-28T12:50:07.497085","created_date":"2025-10-10T00:00:00"}
