{"id":"https://openalex.org/W4391821988","doi":"https://doi.org/10.1038/s42256-024-00795-w","title":"Protein function prediction as approximate semantic entailment","display_name":"Protein function prediction as approximate semantic entailment","publication_year":2024,"publication_date":"2024-02-14","ids":{"openalex":"https://openalex.org/W4391821988","doi":"https://doi.org/10.1038/s42256-024-00795-w"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-024-00795-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00795-w","pdf_url":"https://www.nature.com/articles/s42256-024-00795-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.nature.com/articles/s42256-024-00795-w.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079579378","display_name":"Maxat Kulmanov","orcid":"https://orcid.org/0000-0003-1710-1820"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":true,"raw_author_name":"Maxat Kulmanov","raw_affiliation_strings":["Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Computer, Electrical and Mathematical Sciences & Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia"],"affiliations":[{"raw_affiliation_string":"Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences & Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026406055","display_name":"Francisco J. Guzm\u00e1n\u2010Vega","orcid":"https://orcid.org/0000-0002-6116-9534"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Francisco J. Guzm\u00e1n-Vega","raw_affiliation_strings":["Bioscience Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia"],"affiliations":[{"raw_affiliation_string":"Bioscience Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041748189","display_name":"Paula Duek","orcid":"https://orcid.org/0000-0002-0819-0473"},"institutions":[{"id":"https://openalex.org/I114457229","display_name":"University of Geneva","ror":"https://ror.org/01swzsf04","country_code":"CH","type":"education","lineage":["https://openalex.org/I114457229"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Paula Duek Roggli","raw_affiliation_strings":["CALIPHO group, SIB Swiss Institute of Bioinformatics, CMU, Geneva, Switzerland","Department of Microbiology and Molecular Medicine, Faculty of Medicine, University of Geneva, CMU, Geneva, Switzerland"],"affiliations":[{"raw_affiliation_string":"CALIPHO group, SIB Swiss Institute of Bioinformatics, CMU, Geneva, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"Department of Microbiology and Molecular Medicine, Faculty of Medicine, University of Geneva, CMU, Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068838014","display_name":"Lydie Lane","orcid":"https://orcid.org/0000-0002-9818-3030"},"institutions":[{"id":"https://openalex.org/I114457229","display_name":"University of Geneva","ror":"https://ror.org/01swzsf04","country_code":"CH","type":"education","lineage":["https://openalex.org/I114457229"]},{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"funder","lineage":["https://openalex.org/I12708293"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Lydie Lane","raw_affiliation_strings":["CALIPHO group, SIB Swiss Institute of Bioinformatics, CMU, Geneva, Switzerland","Department of Microbiology and Molecular Medicine, Faculty of Medicine, University of Geneva, CMU, Geneva, Switzerland"],"affiliations":[{"raw_affiliation_string":"CALIPHO group, SIB Swiss Institute of Bioinformatics, CMU, Geneva, Switzerland","institution_ids":["https://openalex.org/I12708293"]},{"raw_affiliation_string":"Department of Microbiology and Molecular Medicine, Faculty of Medicine, University of Geneva, CMU, Geneva, Switzerland","institution_ids":["https://openalex.org/I114457229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051843836","display_name":"Stefan T. Arold","orcid":"https://orcid.org/0000-0001-5278-0668"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Stefan T. Arold","raw_affiliation_strings":["Bioscience Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia"],"affiliations":[{"raw_affiliation_string":"Bioscience Program, Biological and Environmental Science and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5043808311","display_name":"Robert Hoehndorf","orcid":"https://orcid.org/0000-0001-8149-5890"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Robert Hoehndorf","raw_affiliation_strings":["Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","Computer, Electrical and Mathematical Sciences & Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia"],"affiliations":[{"raw_affiliation_string":"Computational Bioscience Research Center, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"Computer, Electrical and Mathematical Sciences & Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"SDAIA-KAUST Center of Excellence in Data Science and Artificial Intelligence, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5079579378"],"corresponding_institution_ids":["https://openalex.org/I71920554"],"apc_list":{"value":9750,"currency":"EUR","value_usd":11690},"apc_paid":{"value":9750,"currency":"EUR","value_usd":11690},"fwci":22.3094,"has_fulltext":false,"cited_by_count":90,"citation_normalized_percentile":{"value":0.99761818,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"6","issue":"2","first_page":"220","last_page":"228"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9993000030517578,"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":0.9993000030517578,"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":0.9991000294685364,"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":0.9968000054359436,"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/axiom","display_name":"Axiom","score":0.8110134601593018},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7176480889320374},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.6555520296096802},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.617406964302063},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5621609687805176},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5505417585372925},{"id":"https://openalex.org/keywords/logical-consequence","display_name":"Logical consequence","score":0.5492449402809143},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.5260267853736877},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.463775098323822},{"id":"https://openalex.org/keywords/aggregate","display_name":"Aggregate (composite)","score":0.43202853202819824},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.39524930715560913},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3597317934036255},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.15608441829681396},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14368683099746704},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07433325052261353}],"concepts":[{"id":"https://openalex.org/C167729594","wikidata":"https://www.wikidata.org/wiki/Q17736","display_name":"Axiom","level":2,"score":0.8110134601593018},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7176480889320374},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.6555520296096802},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.617406964302063},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5621609687805176},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5505417585372925},{"id":"https://openalex.org/C134752490","wikidata":"https://www.wikidata.org/wiki/Q374182","display_name":"Logical consequence","level":2,"score":0.5492449402809143},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.5260267853736877},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.463775098323822},{"id":"https://openalex.org/C4679612","wikidata":"https://www.wikidata.org/wiki/Q866298","display_name":"Aggregate (composite)","level":2,"score":0.43202853202819824},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.39524930715560913},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3597317934036255},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.15608441829681396},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14368683099746704},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07433325052261353},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"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},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1038/s42256-024-00795-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00795-w","pdf_url":"https://www.nature.com/articles/s42256-024-00795-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1038/s42256-024-00795-w","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00795-w","pdf_url":"https://www.nature.com/articles/s42256-024-00795-w.pdf","source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nature Machine Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.6000000238418579}],"awards":[{"id":"https://openalex.org/G1787957066","display_name":null,"funder_award_id":"FCC/1/1976-46-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G3154415231","display_name":null,"funder_award_id":"URF/1/4697-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G5380366079","display_name":null,"funder_award_id":"URF/1/5041-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G7384501959","display_name":null,"funder_award_id":"REI/1/5235-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"},{"id":"https://openalex.org/G7444020395","display_name":null,"funder_award_id":"URF/1/4675-01-01","funder_id":"https://openalex.org/F4320322320","funder_display_name":"King Abdullah University of Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320322320","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4391821988.pdf"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W1974896839","https://openalex.org/W2033377040","https://openalex.org/W2045204781","https://openalex.org/W2098432760","https://openalex.org/W2101291993","https://openalex.org/W2103017472","https://openalex.org/W2116034137","https://openalex.org/W2117486996","https://openalex.org/W2133550211","https://openalex.org/W2139315672","https://openalex.org/W2165275780","https://openalex.org/W2170672962","https://openalex.org/W2181511771","https://openalex.org/W2462007197","https://openalex.org/W2559588208","https://openalex.org/W2609827283","https://openalex.org/W2615066396","https://openalex.org/W2746377945","https://openalex.org/W2807567459","https://openalex.org/W2890301436","https://openalex.org/W2900569176","https://openalex.org/W2936543792","https://openalex.org/W2945297971","https://openalex.org/W2947872911","https://openalex.org/W2951282333","https://openalex.org/W2951731136","https://openalex.org/W2965778154","https://openalex.org/W2976757387","https://openalex.org/W2982975240","https://openalex.org/W3016570015","https://openalex.org/W3048090444","https://openalex.org/W3080555959","https://openalex.org/W3092613928","https://openalex.org/W3112600195","https://openalex.org/W3137270128","https://openalex.org/W3146944767","https://openalex.org/W3164046276","https://openalex.org/W3165795318","https://openalex.org/W3177500196","https://openalex.org/W3177828909","https://openalex.org/W3179436811","https://openalex.org/W3185788310","https://openalex.org/W3211402536","https://openalex.org/W4200204183","https://openalex.org/W4206446428","https://openalex.org/W4213092299","https://openalex.org/W4220952154","https://openalex.org/W4225687252","https://openalex.org/W4286500588","https://openalex.org/W4309506674","https://openalex.org/W4319604583","https://openalex.org/W4320933419","https://openalex.org/W4323438792","https://openalex.org/W4360938460","https://openalex.org/W4375858802","https://openalex.org/W4393565881","https://openalex.org/W6929897340","https://openalex.org/W7014291074"],"related_works":["https://openalex.org/W17155033","https://openalex.org/W3207760230","https://openalex.org/W1496222301","https://openalex.org/W4312814274","https://openalex.org/W1590307681","https://openalex.org/W2536018345","https://openalex.org/W4285370786","https://openalex.org/W2296488620","https://openalex.org/W2358353312","https://openalex.org/W2353836703"],"abstract_inverted_index":{"Abstract":[0],"The":[1],"Gene":[2],"Ontology":[3],"(GO)":[4],"is":[5],"a":[6,80,86,96,109],"formal,":[7],"axiomatic":[8],"theory":[9],"with":[10],"over":[11,130],"100,000":[12],"axioms":[13,71],"that":[14,88,134,148],"describe":[15],"the":[16,30,35,50,54,70,73,113,127,149,156],"molecular":[17],"functions,":[18,65],"biological":[19],"processes":[20],"and":[21,40,48,108,158],"cellular":[22],"locations":[23],"of":[24,32,106,116],"proteins":[25,33],"in":[26,43,53,72,121,155],"three":[27],"subontologies.":[28],"Predicting":[29],"functions":[31,91,120],"using":[34,95,145],"GO":[36,74,90,157],"requires":[37],"both":[38],"learning":[39,77],"reasoning":[41],"capabilities":[42],"order":[44],"to":[45,61,164],"maintain":[46],"consistency":[47],"exploit":[49],"background":[51,153],"knowledge":[52,154],"GO.":[55],"Many":[56],"methods":[57],"have":[58,83],"been":[59],"developed":[60,84],"automatically":[62],"predict":[63],"protein":[64,93,119,141,160],"but":[66],"effectively":[67,151],"exploiting":[68],"all":[69],"for":[75],"knowledge-enhanced":[76],"has":[78],"remained":[79],"challenge.":[81],"We":[82,125,143],"DeepGO-SE,":[85],"method":[87],"predicts":[89,112],"from":[92],"sequences":[94],"pretrained":[97],"large":[98],"language":[99],"model.":[100],"DeepGO-SE":[101,135],"generates":[102],"multiple":[103,131],"approximate":[104,123],"models":[105,132],"GO,":[107],"neural":[110],"network":[111],"truth":[114,128],"values":[115,129],"statements":[117],"about":[118],"these":[122],"models.":[124],"aggregate":[126],"so":[133],"approximates":[136],"semantic":[137],"entailment":[138],"when":[139],"predicting":[140],"functions.":[142],"show,":[144],"several":[146],"benchmarks,":[147],"approach":[150],"exploits":[152],"improves":[159],"function":[161],"prediction":[162],"compared":[163],"state-of-the-art":[165],"methods.":[166]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":60},{"year":2024,"cited_by_count":22},{"year":2012,"cited_by_count":1}],"updated_date":"2025-12-26T23:08:49.675405","created_date":"2025-10-10T00:00:00"}
