{"id":"https://openalex.org/W4408139974","doi":"https://doi.org/10.1093/bib/bbaf075","title":"Ensemble learning based on matrix completion improves microbe-disease association prediction","display_name":"Ensemble learning based on matrix completion improves microbe-disease association prediction","publication_year":2025,"publication_date":"2025-03-01","ids":{"openalex":"https://openalex.org/W4408139974","doi":"https://doi.org/10.1093/bib/bbaf075","pmid":"https://pubmed.ncbi.nlm.nih.gov/40037643"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf075","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf075","pdf_url":"https://academic.oup.com/bib/article-pdf/26/2/bbaf075/62262628/bbaf075.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/26/2/bbaf075/62262628/bbaf075.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100741607","display_name":"Hailin Chen","orcid":"https://orcid.org/0000-0002-5119-4517"},"institutions":[{"id":"https://openalex.org/I13985625","display_name":"East China Jiaotong University","ror":"https://ror.org/05x2f1m38","country_code":"CN","type":"education","lineage":["https://openalex.org/I13985625"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hailin Chen","raw_affiliation_strings":["School of Information and Software Engineering, East China Jiaotong University , No. 808, Shuanggangdong Street, Nanchang 330013 ,","School of Information and Software Engineering, East China Jiaotong University, No. 808, Shuanggangdong Street, Nanchang 330013, China"],"raw_orcid":"https://orcid.org/0000-0002-5119-4517","affiliations":[{"raw_affiliation_string":"School of Information and Software Engineering, East China Jiaotong University , No. 808, Shuanggangdong Street, Nanchang 330013 ,","institution_ids":["https://openalex.org/I13985625"]},{"raw_affiliation_string":"School of Information and Software Engineering, East China Jiaotong University, No. 808, Shuanggangdong Street, Nanchang 330013, China","institution_ids":["https://openalex.org/I13985625"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101432979","display_name":"Kuan Chen","orcid":"https://orcid.org/0009-0001-6470-3827"},"institutions":[{"id":"https://openalex.org/I13985625","display_name":"East China Jiaotong University","ror":"https://ror.org/05x2f1m38","country_code":"CN","type":"education","lineage":["https://openalex.org/I13985625"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kuan Chen","raw_affiliation_strings":["School of Information and Software Engineering, East China Jiaotong University , No. 808, Shuanggangdong Street, Nanchang 330013 ,","School of Information and Software Engineering, East China Jiaotong University, No. 808, Shuanggangdong Street, Nanchang 330013, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Software Engineering, East China Jiaotong University , No. 808, Shuanggangdong Street, Nanchang 330013 ,","institution_ids":["https://openalex.org/I13985625"]},{"raw_affiliation_string":"School of Information and Software Engineering, East China Jiaotong University, No. 808, Shuanggangdong Street, Nanchang 330013, China","institution_ids":["https://openalex.org/I13985625"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I13985625"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.8306,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.90236037,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"26","issue":"2","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":0.9939000010490417,"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":0.9939000010490417,"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/T11899","display_name":"Brucella: diagnosis, epidemiology, treatment","score":0.9329000115394592,"subfield":{"id":"https://openalex.org/subfields/3404","display_name":"Small Animals"},"field":{"id":"https://openalex.org/fields/34","display_name":"Veterinary"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9232000112533569,"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/ensemble-learning","display_name":"Ensemble learning","score":0.6310375928878784},{"id":"https://openalex.org/keywords/association","display_name":"Association (psychology)","score":0.6152799725532532},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6139135360717773},{"id":"https://openalex.org/keywords/matrix-completion","display_name":"Matrix completion","score":0.544944703578949},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5384801030158997},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4591516852378845},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.18376362323760986},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.0670207142829895}],"concepts":[{"id":"https://openalex.org/C45942800","wikidata":"https://www.wikidata.org/wiki/Q245652","display_name":"Ensemble learning","level":2,"score":0.6310375928878784},{"id":"https://openalex.org/C142853389","wikidata":"https://www.wikidata.org/wiki/Q744778","display_name":"Association (psychology)","level":2,"score":0.6152799725532532},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6139135360717773},{"id":"https://openalex.org/C2778459887","wikidata":"https://www.wikidata.org/wiki/Q6787865","display_name":"Matrix completion","level":3,"score":0.544944703578949},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5384801030158997},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4591516852378845},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.18376362323760986},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0670207142829895},{"id":"https://openalex.org/C163716315","wikidata":"https://www.wikidata.org/wiki/Q901177","display_name":"Gaussian","level":2,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000098406","descriptor_name":"Ensemble Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098406","descriptor_name":"Ensemble Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098406","descriptor_name":"Ensemble Learning","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":true},{"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":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":"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":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":true},{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":true},{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000382","qualifier_name":"microbiology","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":"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":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf075","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf075","pdf_url":"https://academic.oup.com/bib/article-pdf/26/2/bbaf075/62262628/bbaf075.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40037643","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40037643","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:11879468","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11879468","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf075","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf075","pdf_url":"https://academic.oup.com/bib/article-pdf/26/2/bbaf075/62262628/bbaf075.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7806017662","display_name":null,"funder_award_id":"20242BAB25083","funder_id":"https://openalex.org/F4320322665","funder_display_name":"Natural Science Foundation of Jiangxi Province"}],"funders":[{"id":"https://openalex.org/F4320322665","display_name":"Natural Science Foundation of Jiangxi Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4408139974.pdf"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W1927710737","https://openalex.org/W1973961687","https://openalex.org/W1985340647","https://openalex.org/W2008997396","https://openalex.org/W2012490955","https://openalex.org/W2037594831","https://openalex.org/W2059958128","https://openalex.org/W2090925778","https://openalex.org/W2103972604","https://openalex.org/W2112635226","https://openalex.org/W2131415145","https://openalex.org/W2158135353","https://openalex.org/W2169330513","https://openalex.org/W2171571559","https://openalex.org/W2229719906","https://openalex.org/W2480969496","https://openalex.org/W2584926544","https://openalex.org/W2620406790","https://openalex.org/W2739664659","https://openalex.org/W2765928324","https://openalex.org/W2803434593","https://openalex.org/W2885494203","https://openalex.org/W2901312953","https://openalex.org/W2916981547","https://openalex.org/W2922817064","https://openalex.org/W2936110251","https://openalex.org/W2944556810","https://openalex.org/W2957404091","https://openalex.org/W2960557205","https://openalex.org/W2963636339","https://openalex.org/W3017158857","https://openalex.org/W3048259272","https://openalex.org/W4241368925","https://openalex.org/W4246271082","https://openalex.org/W4313480822","https://openalex.org/W4323974793","https://openalex.org/W4383198266","https://openalex.org/W4391005914","https://openalex.org/W4404127278"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W4387369504","https://openalex.org/W3046775127","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W3107602296","https://openalex.org/W4364306694","https://openalex.org/W4312192474"],"abstract_inverted_index":{"Microbes":[0],"have":[1,29],"a":[2],"profound":[3],"impact":[4],"on":[5],"human":[6],"health.":[7],"Identifying":[8],"disease-associated":[9,27],"microbes":[10,28,69],"would":[11],"provide":[12],"helpful":[13],"guidance":[14],"for":[15,42],"drug":[16],"development":[17],"and":[18,70,72,102,126],"disease":[19],"treatment.":[20],"Through":[21],"an":[22,50],"enormous":[23],"experimental":[24],"effort,":[25],"limited":[26],"been":[30],"determined.":[31],"Accurate":[32],"computational":[33],"approaches":[34],"are":[35],"needed":[36],"to":[37,56,78,118,121],"predict":[38,79,122],"potential":[39],"microbe-disease":[40,58,80],"associations":[41,81],"biomedical":[43],"screening.":[44],"In":[45],"this":[46],"study,":[47],"we":[48,115],"present":[49],"ensemble":[51],"learning":[52],"framework":[53],"entitled":[54],"SABMDA":[55,107,117],"improve":[57],"association":[59],"inference.":[60],"We":[61],"first":[62],"integrate":[63],"multi-source":[64],"of":[65],"information":[66],"from":[67],"both":[68],"diseases,":[71],"develop":[73],"two":[74,88],"matrix":[75,89],"completion":[76,90],"algorithms":[77,91],"successively.":[82],"Ablation":[83],"tests":[84],"show":[85,128],"combining":[86],"the":[87],"can":[92],"receive":[93],"better":[94],"prediction":[95,131],"performance.":[96],"Moreover,":[97],"comprehensive":[98],"experiments,":[99],"including":[100],"cross-validations":[101],"independent":[103],"test,":[104],"demonstrate":[105],"that":[106],"outperforms":[108],"seven":[109],"recent":[110],"baseline":[111],"methods":[112],"significantly.":[113],"Finally,":[114],"apply":[116],"three":[119],"diseases":[120],"their":[123],"associated":[124],"microbes,":[125],"results":[127],"SABMDA's":[129],"remarkable":[130],"ability":[132],"in":[133],"real":[134],"situations.":[135]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":3}],"updated_date":"2026-08-04T08:18:43.703281","created_date":"2025-10-10T00:00:00"}
