{"id":"https://openalex.org/W4406728994","doi":"https://doi.org/10.1109/tcbbio.2025.3532644","title":"Enhancing Disease-Metabolite Associations Prediction With Weighted Graph Convolutional Networks Based on Community-Driven Link Completion","display_name":"Enhancing Disease-Metabolite Associations Prediction With Weighted Graph Convolutional Networks Based on Community-Driven Link Completion","publication_year":2025,"publication_date":"2025-01-22","ids":{"openalex":"https://openalex.org/W4406728994","doi":"https://doi.org/10.1109/tcbbio.2025.3532644","pmid":"https://pubmed.ncbi.nlm.nih.gov/40811398"},"language":"en","primary_location":{"id":"doi:10.1109/tcbbio.2025.3532644","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3532644","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE 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/A5041042381","display_name":"W.D. Liu","orcid":"https://orcid.org/0000-0002-7076-4933"},"institutions":[{"id":"https://openalex.org/I22716506","display_name":"Lanzhou University of Technology","ror":"https://ror.org/03panb555","country_code":"CN","type":"education","lineage":["https://openalex.org/I22716506"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Wenzhi Liu","raw_affiliation_strings":["School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China"],"affiliations":[{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","institution_ids":["https://openalex.org/I22716506"]},{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China","institution_ids":["https://openalex.org/I22716506"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085740580","display_name":"Pengli Lu","orcid":"https://orcid.org/0000-0002-0754-1358"},"institutions":[{"id":"https://openalex.org/I22716506","display_name":"Lanzhou University of Technology","ror":"https://ror.org/03panb555","country_code":"CN","type":"education","lineage":["https://openalex.org/I22716506"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Pengli Lu","raw_affiliation_strings":["School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China"],"affiliations":[{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","institution_ids":["https://openalex.org/I22716506"]},{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China","institution_ids":["https://openalex.org/I22716506"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5107790361","display_name":"Jiejun Zhou","orcid":"https://orcid.org/0009-0005-2832-2444"},"institutions":[{"id":"https://openalex.org/I22716506","display_name":"Lanzhou University of Technology","ror":"https://ror.org/03panb555","country_code":"CN","type":"education","lineage":["https://openalex.org/I22716506"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiejun Zhou","raw_affiliation_strings":["School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China"],"affiliations":[{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, China","institution_ids":["https://openalex.org/I22716506"]},{"raw_affiliation_string":"School of Computer and Communication, Lanzhou University of Technology, Lanzhou, Gansu, P.R. China","institution_ids":["https://openalex.org/I22716506"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5041042381"],"corresponding_institution_ids":["https://openalex.org/I22716506"],"apc_list":null,"apc_paid":null,"fwci":6.4904,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.95960713,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"22","issue":"2","first_page":"744","last_page":"756"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":0.9926999807357788,"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":0.9926999807357788,"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":0.9868999719619751,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9746999740600586,"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/graph","display_name":"Graph","score":0.5885547399520874},{"id":"https://openalex.org/keywords/link","display_name":"Link (geometry)","score":0.5872879028320312},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5169526934623718},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2034524381160736},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.13151565194129944}],"concepts":[{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5885547399520874},{"id":"https://openalex.org/C2778753846","wikidata":"https://www.wikidata.org/wiki/Q6554239","display_name":"Link (geometry)","level":2,"score":0.5872879028320312},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5169526934623718},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2034524381160736},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.13151565194129944}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/tcbbio.2025.3532644","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbbio.2025.3532644","pdf_url":null,"source":{"id":"https://openalex.org/S5407042751","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"2998-4165","issn":["2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40811398","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40811398","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 transactions on computational biology and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","score":0.4099999964237213,"display_name":"Zero hunger"}],"awards":[{"id":"https://openalex.org/G8669185616","display_name":null,"funder_award_id":"23JRRA770","funder_id":"https://openalex.org/F4320322880","funder_display_name":"Natural Science Foundation of Gansu Province"}],"funders":[{"id":"https://openalex.org/F4320322880","display_name":"Natural Science Foundation of Gansu Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":53,"referenced_works":["https://openalex.org/W2023999138","https://openalex.org/W2047940964","https://openalex.org/W2050171685","https://openalex.org/W2089458547","https://openalex.org/W2096729078","https://openalex.org/W2128049108","https://openalex.org/W2151936673","https://openalex.org/W2154739436","https://openalex.org/W2527836113","https://openalex.org/W2599812844","https://openalex.org/W2761956380","https://openalex.org/W2793868694","https://openalex.org/W2796909069","https://openalex.org/W2981895524","https://openalex.org/W2983728827","https://openalex.org/W2985331920","https://openalex.org/W3027579288","https://openalex.org/W3030657083","https://openalex.org/W3043440374","https://openalex.org/W3092397780","https://openalex.org/W3096974522","https://openalex.org/W3111441956","https://openalex.org/W3132451856","https://openalex.org/W3135690269","https://openalex.org/W3152668380","https://openalex.org/W3153874679","https://openalex.org/W3188218913","https://openalex.org/W3194841521","https://openalex.org/W3195226391","https://openalex.org/W3198168376","https://openalex.org/W4200350015","https://openalex.org/W4205736070","https://openalex.org/W4206168273","https://openalex.org/W4206447491","https://openalex.org/W4210548518","https://openalex.org/W4220905352","https://openalex.org/W4243678157","https://openalex.org/W4293577899","https://openalex.org/W4297457250","https://openalex.org/W4311422829","https://openalex.org/W4312084649","https://openalex.org/W4315977496","https://openalex.org/W4327947056","https://openalex.org/W4385442674","https://openalex.org/W4389195947","https://openalex.org/W4390872292","https://openalex.org/W4391174497","https://openalex.org/W4391262301","https://openalex.org/W4392125974","https://openalex.org/W4392266716","https://openalex.org/W4399319394","https://openalex.org/W4401389044","https://openalex.org/W6603694148"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W1518185400","https://openalex.org/W3200586296","https://openalex.org/W2390279801","https://openalex.org/W4230332972","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W1998033311"],"abstract_inverted_index":{"Metabolites,":[0],"the":[1,17,31,72,96,104,114,156],"end":[2],"products":[3],"of":[4,75],"biological":[5],"processes,":[6],"hold":[7],"immense":[8],"potential":[9,88,164],"as":[10,159],"biomarkers":[11],"for":[12,33,163],"elucidating":[13],"disease":[14,81,108,151],"mechanisms.":[15],"Given":[16],"costs":[18],"associated":[19],"with":[20],"wet-lab":[21],"experiments,":[22],"computational":[23],"methods":[24],"offer":[25],"a":[26,41,57,160],"viable":[27],"solution":[28],"to":[29,43,70,86,112],"narrow":[30],"search":[32],"candidate":[34],"metabolites.":[35],"However,":[36],"sparse":[37,115],"disease-metabolite":[38,76],"associations":[39],"pose":[40],"challenge":[42],"current":[44],"deep":[45],"learning-based":[46],"methods,":[47],"limiting":[48],"comprehensive":[49],"feature":[50,125],"learning.":[51],"To":[52],"address":[53],"this,":[54],"we":[55,79,94],"propose":[56],"novel":[58],"Weighted":[59],"Graph":[60],"Convolutional":[61],"Network":[62],"approach":[63],"based":[64],"on":[65,136,149],"Community-Driven":[66],"Link":[67],"Completion":[68],"(WGCNCDLC)":[69],"improve":[71],"predictive":[73,161],"accuracy":[74],"associations.":[77],"Specifically,":[78],"construct":[80],"and":[82,102,109,152],"metabolite":[83,110,165],"similarity":[84,97],"networks":[85,98],"complete":[87],"links":[89,116],"between":[90,107,117],"same-type":[91],"nodes.":[92,119],"Furthermore,":[93],"partition":[95],"into":[99],"multiple":[100],"communities":[101,111],"calculate":[103],"connection":[105],"strengths":[106],"enrich":[113],"different-type":[118],"The":[120],"completed":[121],"network":[122,132],"enables":[123],"richer":[124],"capture":[126],"in":[127],"subsequent":[128],"weighted":[129],"graph":[130],"convolutional":[131],"encoding.":[133],"Experimental":[134],"results":[135],"two":[137],"datasets":[138],"show":[139],"our":[140],"WGCNCDLC":[141],"model":[142],"outperforms":[143],"nine":[144],"state-of-the-art":[145],"algorithms.":[146],"Case":[147],"studies":[148],"Alzheimer's":[150],"asthma":[153],"further":[154],"validate":[155],"model's":[157],"reliability":[158],"tool":[162],"discovery.":[166]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3}],"updated_date":"2026-03-14T08:43:22.919905","created_date":"2025-10-10T00:00:00"}
