{"id":"https://openalex.org/W4297457250","doi":"https://doi.org/10.1093/bib/bbac423","title":"Microbe-bridged disease-metabolite associations identification by heterogeneous graph fusion","display_name":"Microbe-bridged disease-metabolite associations identification by heterogeneous graph fusion","publication_year":2022,"publication_date":"2022-09-27","ids":{"openalex":"https://openalex.org/W4297457250","doi":"https://doi.org/10.1093/bib/bbac423","pmid":"https://pubmed.ncbi.nlm.nih.gov/36168719"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac423","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac423","pdf_url":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002558463","display_name":"Jitong Feng","orcid":null},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jitong Feng","raw_affiliation_strings":["College of Intelligence and Computing, Tianjin University , Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Intelligence and Computing, Tianjin University , Tianjin, China","institution_ids":["https://openalex.org/I162868743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040092895","display_name":"Shengbo Wu","orcid":"https://orcid.org/0000-0001-7497-2935"},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]},{"id":"https://openalex.org/I192209268","display_name":"Shaoxing University","ror":"https://ror.org/0435tej63","country_code":"CN","type":"education","lineage":["https://openalex.org/I192209268"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shengbo Wu","raw_affiliation_strings":["School of Chemical Engineering and Technology, Tianjin University , Tianjin, China","Zhejiang Shaoxing Research Institute of Tianjin University , Shaoxing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Chemical Engineering and Technology, Tianjin University , Tianjin, China","institution_ids":["https://openalex.org/I162868743"]},{"raw_affiliation_string":"Zhejiang Shaoxing Research Institute of Tianjin University , Shaoxing, China","institution_ids":["https://openalex.org/I192209268","https://openalex.org/I162868743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081832999","display_name":"Hongpeng Yang","orcid":null},"institutions":[{"id":"https://openalex.org/I155781252","display_name":"University of South Carolina","ror":"https://ror.org/02b6qw903","country_code":"US","type":"education","lineage":["https://openalex.org/I155781252"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hongpeng Yang","raw_affiliation_strings":["School of Computational Science and Engineering, University of South Carolina , Columbia, U.S"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computational Science and Engineering, University of South Carolina , Columbia, U.S","institution_ids":["https://openalex.org/I155781252"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018156666","display_name":"Chengwei Ai","orcid":"https://orcid.org/0000-0003-1314-660X"},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chengwei Ai","raw_affiliation_strings":["College of Intelligence and Computing, Tianjin University , Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Intelligence and Computing, Tianjin University , Tianjin, China","institution_ids":["https://openalex.org/I162868743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052751827","display_name":"Jianjun Qiao","orcid":null},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]},{"id":"https://openalex.org/I192209268","display_name":"Shaoxing University","ror":"https://ror.org/0435tej63","country_code":"CN","type":"education","lineage":["https://openalex.org/I192209268"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jianjun Qiao","raw_affiliation_strings":["School of Chemical Engineering and Technology, Tianjin University , Tianjin, China","Zhejiang Shaoxing Research Institute of Tianjin University , Shaoxing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Chemical Engineering and Technology, Tianjin University , Tianjin, China","institution_ids":["https://openalex.org/I162868743"]},{"raw_affiliation_string":"Zhejiang Shaoxing Research Institute of Tianjin University , Shaoxing, China","institution_ids":["https://openalex.org/I192209268","https://openalex.org/I162868743"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006839468","display_name":"Junhai Xu","orcid":"https://orcid.org/0000-0002-4289-647X"},"institutions":[{"id":"https://openalex.org/I162868743","display_name":"Tianjin University","ror":"https://ror.org/012tb2g32","country_code":"CN","type":"education","lineage":["https://openalex.org/I162868743"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Junhai Xu","raw_affiliation_strings":["College of Intelligence and Computing, Tianjin University , Tianjin, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Intelligence and Computing, Tianjin University , Tianjin, China","institution_ids":["https://openalex.org/I162868743"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100702161","display_name":"Fei Guo","orcid":"https://orcid.org/0000-0001-8346-0798"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Fei Guo","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University , Changsha, China"],"raw_orcid":"https://orcid.org/0000-0001-8346-0798","affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University , Changsha, China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5006839468","https://openalex.org/A5100702161"],"corresponding_institution_ids":["https://openalex.org/I139660479","https://openalex.org/I162868743"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.6458,"has_fulltext":false,"cited_by_count":19,"citation_normalized_percentile":{"value":0.84007698,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"23","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.26750001311302185,"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/T10066","display_name":"Gut microbiota and health","score":0.26750001311302185,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.2029999941587448,"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":0.20190000534057617,"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/metabolite","display_name":"Metabolite","score":0.7971146702766418},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.6737377643585205},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.6316449046134949},{"id":"https://openalex.org/keywords/bipartite-graph","display_name":"Bipartite graph","score":0.5179135203361511},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4349154829978943},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4309699237346649},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.3791182041168213},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3026180565357208},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.295074999332428},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2810653746128082},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.10078784823417664},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.09328433871269226},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.0800069272518158}],"concepts":[{"id":"https://openalex.org/C2777477808","wikidata":"https://www.wikidata.org/wiki/Q407595","display_name":"Metabolite","level":2,"score":0.7971146702766418},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.6737377643585205},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.6316449046134949},{"id":"https://openalex.org/C197657726","wikidata":"https://www.wikidata.org/wiki/Q174733","display_name":"Bipartite graph","level":3,"score":0.5179135203361511},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4349154829978943},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4309699237346649},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.3791182041168213},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3026180565357208},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.295074999332428},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2810653746128082},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.10078784823417664},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.09328433871269226},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.0800069272518158}],"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":"D003924","descriptor_name":"Diabetes Mellitus, Type 2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003924","descriptor_name":"Diabetes Mellitus, Type 2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003924","descriptor_name":"Diabetes Mellitus, Type 2","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":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:10.1093/bib/bbac423","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac423","pdf_url":null,"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:36168719","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36168719","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":null,"sustainable_development_goals":[{"score":0.46000000834465027,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1558580378","display_name":null,"funder_award_id":"NSFC 62172296","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2708924437","display_name":null,"funder_award_id":"2021YFC2100700","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"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":65,"referenced_works":["https://openalex.org/W44929223","https://openalex.org/W46659105","https://openalex.org/W61851215","https://openalex.org/W90362830","https://openalex.org/W1561844010","https://openalex.org/W1761787460","https://openalex.org/W1975147762","https://openalex.org/W1977556410","https://openalex.org/W1979948289","https://openalex.org/W2007466714","https://openalex.org/W2036720248","https://openalex.org/W2059327215","https://openalex.org/W2062364627","https://openalex.org/W2089229368","https://openalex.org/W2091085232","https://openalex.org/W2095705004","https://openalex.org/W2128049108","https://openalex.org/W2131909681","https://openalex.org/W2148471188","https://openalex.org/W2295182096","https://openalex.org/W2297764176","https://openalex.org/W2301389244","https://openalex.org/W2336169222","https://openalex.org/W2473745125","https://openalex.org/W2593540640","https://openalex.org/W2750245257","https://openalex.org/W2767683865","https://openalex.org/W2786394271","https://openalex.org/W2796909069","https://openalex.org/W2888269462","https://openalex.org/W2892527163","https://openalex.org/W2898599254","https://openalex.org/W2904655615","https://openalex.org/W2904908925","https://openalex.org/W2905448096","https://openalex.org/W2908438355","https://openalex.org/W2950173838","https://openalex.org/W2962740144","https://openalex.org/W2964321699","https://openalex.org/W2973635830","https://openalex.org/W2982114105","https://openalex.org/W2983728827","https://openalex.org/W2996724422","https://openalex.org/W2998128967","https://openalex.org/W3022746138","https://openalex.org/W3042221936","https://openalex.org/W3044997584","https://openalex.org/W3088947564","https://openalex.org/W3092397780","https://openalex.org/W3095002965","https://openalex.org/W3197858765","https://openalex.org/W4210986718","https://openalex.org/W4255502791","https://openalex.org/W4281681342","https://openalex.org/W4290052546","https://openalex.org/W6602002561","https://openalex.org/W6603694148","https://openalex.org/W6644682428","https://openalex.org/W6674330103","https://openalex.org/W6703267800","https://openalex.org/W6720006811","https://openalex.org/W6750668492","https://openalex.org/W6770088410","https://openalex.org/W6783331669","https://openalex.org/W6800344252"],"related_works":["https://openalex.org/W2521903434","https://openalex.org/W1753739957","https://openalex.org/W2085913165","https://openalex.org/W2371352078","https://openalex.org/W2011282322","https://openalex.org/W2024044986","https://openalex.org/W2005550771","https://openalex.org/W3084209502","https://openalex.org/W1988419672","https://openalex.org/W2071288609"],"abstract_inverted_index":{"MOTIVATION:":[0],"Metabolomics":[1],"has":[2,174],"developed":[3],"rapidly":[4],"in":[5,44,63,177],"recent":[6],"years,":[7],"and":[8,17,28,39,53,76,96,106,118,142,163,198,216,225],"metabolism-related":[9],"databases":[10,95],"are":[11,20,41,208],"also":[12],"gradually":[13],"constructed.":[14],"Nowadays,":[15],"more":[16,18],"studies":[19],"being":[21],"carried":[22],"out":[23],"on":[24,80,160],"diverse":[25],"microbes,":[26,37,104],"metabolites":[27,38,105],"diseases.":[29,107],"However,":[30],"the":[31,45,64,70,77,110,128,148,155,161,178,185,211,217],"logics":[32],"of":[33,47,55,66,100,150,180,188,213,219],"various":[34,181],"associations":[35,101,215],"among":[36,103],"diseases":[40,141],"limited":[42],"understanding":[43],"biomedicine":[46],"gut":[48],"microbial":[49,57],"system.":[50],"The":[51,167],"collection":[52],"analysis":[54],"relevant":[56],"bioinformation":[58],"play":[59],"an":[60],"important":[61],"role":[62],"revelation":[65],"microbe-metabolite-disease":[67],"associations.":[68,183],"Therefore,":[69],"dataset":[71],"that":[72,171,204],"integrates":[73],"multiple":[74],"relationships":[75],"method":[78],"based":[79],"complex":[81],"heterogeneous":[82,124],"graphs":[83],"need":[84],"to":[85,126,146],"be":[86],"developed.":[87],"RESULTS:":[88],"In":[89,131,144],"this":[90],"study,":[91],"we":[92,120,153],"integrated":[93],"some":[94],"extracted":[97],"a":[98,123,138],"variety":[99],"data":[102,115],"After":[108],"obtaining":[109],"three":[111],"interconnected":[112],"bilateral":[113],"association":[114,129],"(microbe-metabolite,":[116],"metabolite-disease":[117],"disease-microbe),":[119],"considered":[121],"building":[122],"graph":[125,157],"describe":[127],"data.":[130],"our":[132,172,205],"model,":[133],"microbes":[134],"were":[135],"used":[136,154],"as":[137],"bridge":[139],"between":[140],"metabolites.":[143],"order":[145],"fuse":[147],"information":[149],"disease-microbe-metabolite":[151],"graph,":[152],"bipartite":[156,165],"attention":[158],"network":[159],"disease-microbe":[162],"metabolite-microbe":[164],"graph.":[166],"experimental":[168],"results":[169],"show":[170],"model":[173],"good":[175],"performance":[176],"prediction":[179,218],"disease-metabolite":[182],"Through":[184],"case":[186],"study":[187],"type":[189],"2":[190],"diabetes":[191],"mellitus,":[192],"Parkinson's":[193],"disease,":[194],"inflammatory":[195],"bowel":[196],"disease":[197],"liver":[199],"cirrhosis,":[200],"it":[201],"is":[202],"noted":[203],"proposed":[206],"methodology":[207],"valuable":[209],"for":[210,221],"mining":[212],"other":[214],"biomarkers":[220],"different":[222],"human":[223],"diseases.Availability":[224],"implementation:":[226],"https://github.com/Selenefreeze/DiMiMe.git.":[227]},"counts_by_year":[{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":11}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
