{"id":"https://openalex.org/W4383058125","doi":"https://doi.org/10.1093/bib/bbad243","title":"Large-scale predicting protein functions through heterogeneous feature fusion","display_name":"Large-scale predicting protein functions through heterogeneous feature fusion","publication_year":2023,"publication_date":"2023-07-01","ids":{"openalex":"https://openalex.org/W4383058125","doi":"https://doi.org/10.1093/bib/bbad243","pmid":"https://pubmed.ncbi.nlm.nih.gov/37401369"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad243","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad243","pdf_url":"https://academic.oup.com/bib/article-pdf/24/4/bbad243/50916647/bbad243.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/24/4/bbad243/50916647/bbad243.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102763406","display_name":"Rongtao Zheng","orcid":"https://orcid.org/0000-0002-1241-7108"},"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":false,"raw_author_name":"Rongtao Zheng","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University , 410000 Changsha , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University , 410000 Changsha , China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015986813","display_name":"Zhijian Huang","orcid":"https://orcid.org/0000-0003-1601-3802"},"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":false,"raw_author_name":"Zhijian Huang","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University , 410000 Changsha , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University , 410000 Changsha , China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085608332","display_name":"Lei Deng","orcid":"https://orcid.org/0000-0003-2869-1619"},"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":"Lei Deng","raw_affiliation_strings":["School of Computer Science and Engineering, Central South University , 410000 Changsha , China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Central South University , 410000 Changsha , China","institution_ids":["https://openalex.org/I139660479"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5085608332"],"corresponding_institution_ids":["https://openalex.org/I139660479"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.9508,"has_fulltext":true,"cited_by_count":21,"citation_normalized_percentile":{"value":0.86728408,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"24","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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":0.9979000091552734,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9957000017166138,"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/protein-function-prediction","display_name":"Protein function prediction","score":0.7814837694168091},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7187445759773254},{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.7173043489456177},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.5298385620117188},{"id":"https://openalex.org/keywords/perceptron","display_name":"Perceptron","score":0.4583875238895416},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.42190253734588623},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.40512004494667053},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40465816855430603},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4038717448711395},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.271084725856781},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.1989770531654358},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.18767234683036804},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17008435726165771},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.09030774235725403}],"concepts":[{"id":"https://openalex.org/C207060522","wikidata":"https://www.wikidata.org/wiki/Q7251473","display_name":"Protein function prediction","level":4,"score":0.7814837694168091},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7187445759773254},{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.7173043489456177},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.5298385620117188},{"id":"https://openalex.org/C60908668","wikidata":"https://www.wikidata.org/wiki/Q690207","display_name":"Perceptron","level":3,"score":0.4583875238895416},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.42190253734588623},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40512004494667053},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40465816855430603},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4038717448711395},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.271084725856781},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.1989770531654358},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.18767234683036804},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17008435726165771},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.09030774235725403},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","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":"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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","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":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad243","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad243","pdf_url":"https://academic.oup.com/bib/article-pdf/24/4/bbad243/50916647/bbad243.pdf","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:37401369","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37401369","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":{"id":"doi:10.1093/bib/bbad243","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad243","pdf_url":"https://academic.oup.com/bib/article-pdf/24/4/bbad243/50916647/bbad243.pdf","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"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2008773563","display_name":null,"funder_award_id":"62272490","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4765830214","display_name":null,"funder_award_id":"61972422","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4383058125.pdf","grobid_xml":"https://content.openalex.org/works/W4383058125.grobid-xml"},"referenced_works_count":68,"referenced_works":["https://openalex.org/W146900863","https://openalex.org/W1530397352","https://openalex.org/W1963538288","https://openalex.org/W1976526581","https://openalex.org/W2022058405","https://openalex.org/W2044350743","https://openalex.org/W2076024397","https://openalex.org/W2095705004","https://openalex.org/W2096173332","https://openalex.org/W2101291993","https://openalex.org/W2107327414","https://openalex.org/W2108984616","https://openalex.org/W2110400988","https://openalex.org/W2111209586","https://openalex.org/W2117486996","https://openalex.org/W2137146016","https://openalex.org/W2151887741","https://openalex.org/W2152896172","https://openalex.org/W2153463820","https://openalex.org/W2158714788","https://openalex.org/W2171815113","https://openalex.org/W2194775991","https://openalex.org/W2227395312","https://openalex.org/W2615066396","https://openalex.org/W2807567459","https://openalex.org/W2885223409","https://openalex.org/W2888052919","https://openalex.org/W2944052218","https://openalex.org/W2951149542","https://openalex.org/W2951282333","https://openalex.org/W2951731136","https://openalex.org/W2952218450","https://openalex.org/W2980789587","https://openalex.org/W2989608901","https://openalex.org/W2993094148","https://openalex.org/W2994675673","https://openalex.org/W2995514860","https://openalex.org/W2996575119","https://openalex.org/W3023746197","https://openalex.org/W3089088681","https://openalex.org/W3136918052","https://openalex.org/W3137270128","https://openalex.org/W3143063265","https://openalex.org/W3146944767","https://openalex.org/W3165795318","https://openalex.org/W3166372986","https://openalex.org/W3177500196","https://openalex.org/W3177828909","https://openalex.org/W3179436811","https://openalex.org/W3211795435","https://openalex.org/W4220991280","https://openalex.org/W4236358448","https://openalex.org/W4280569672","https://openalex.org/W4293046261","https://openalex.org/W4293430819","https://openalex.org/W4295312788","https://openalex.org/W4308834336","https://openalex.org/W4385245566","https://openalex.org/W6674330103","https://openalex.org/W6736685754","https://openalex.org/W6739901393","https://openalex.org/W6757817989","https://openalex.org/W6760045743","https://openalex.org/W6766978945","https://openalex.org/W6771319414","https://openalex.org/W6780226713","https://openalex.org/W6782527804","https://openalex.org/W6795866128"],"related_works":["https://openalex.org/W2771582859","https://openalex.org/W2106830745","https://openalex.org/W2952660917","https://openalex.org/W2281978860","https://openalex.org/W2941245232","https://openalex.org/W2599177070","https://openalex.org/W3109006384","https://openalex.org/W2301631766","https://openalex.org/W2807567459","https://openalex.org/W2901913417"],"abstract_inverted_index":{"As":[0],"the":[1,11,14,45,82,154,180,192],"volume":[2],"of":[3,13,17,25,49,56,84,140,165,169,176,182,227],"protein":[4,26,76],"sequence":[5,62],"and":[6,86,133,142,172,190,236],"structure":[7],"data":[8],"grows":[9],"rapidly,":[10],"functions":[12,52,121,164],"overwhelming":[15],"majority":[16],"proteins":[18,57,141,166],"cannot":[19],"be":[20],"experimentally":[21,50],"determined.":[22],"Automated":[23],"annotation":[24],"function":[27,77,147],"at":[28,240],"a":[29,91,111,126],"large":[30,54],"scale":[31],"is":[32,178,187],"becoming":[33],"increasingly":[34],"important.":[35],"Existing":[36],"computational":[37,150],"prediction":[38,78],"methods":[39],"are":[40,218,229,238],"typically":[41],"based":[42,230],"on":[43,191,231],"expanding":[44],"relatively":[46],"small":[47],"number":[48,181],"determined":[51],"to":[53,94,109,116,136],"collections":[55],"with":[58,105],"various":[59],"clues,":[60,108],"including":[61],"homology,":[63],"protein-protein":[64],"interaction,":[65],"gene":[66],"co-expression,":[67],"etc.":[68],"Although":[69],"there":[70],"has":[71,90],"been":[72],"some":[73],"progress":[74],"in":[75,79,167,214],"recent":[80],"years,":[81],"development":[83],"accurate":[85],"reliable":[87],"solutions":[88],"still":[89],"long":[92],"way":[93],"go.":[95],"Here":[96],"we":[97,205],"exploit":[98],"AlphaFold":[99,186],"predicted":[100,184,232],"three-dimensional":[101],"structural":[102],"information,":[103],"together":[104],"other":[106,158,193],"non-structural":[107,199],"develop":[110],"large-scale":[112],"approach":[113],"termed":[114],"PredGO":[115,195],"annotate":[117],"Gene":[118],"Ontology":[119],"(GO)":[120],"for":[122,146,161,201,216],"proteins.":[123],"We":[124],"use":[125,198],"pre-trained":[127],"language":[128],"model,":[129],"geometric":[130],"vector":[131],"perceptrons":[132],"attention":[134],"mechanisms":[135],"extract":[137],"heterogeneous":[138],"features":[139,145],"fuse":[143],"these":[144],"prediction.":[148,203],"The":[149,174,234],"results":[151],"demonstrate":[152],"that":[153,207],"proposed":[155],"method":[156],"outperforms":[157],"state-of-the-art":[159],"approaches":[160],"predicting":[162],"GO":[163],"terms":[168],"both":[170],"coverage":[171,177],"accuracy.":[173],"improvement":[175],"because":[179],"structures":[183],"by":[185,220],"greatly":[188],"increased,":[189],"hand,":[194],"can":[196],"extensively":[197],"information":[200],"functional":[202],"Moreover,":[204],"show":[206],"over":[208,222],"205":[209],"000":[210,224],"($\\sim":[211,225],"$100%)":[212],"entries":[213],"UniProt":[215],"human":[217],"annotated":[219],"PredGO,":[221],"186":[223],"$90%)":[226],"which":[228],"structure.":[233],"webserver":[235],"database":[237],"available":[239],"http://predgo.denglab.org/.":[241]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}