{"id":"https://openalex.org/W4412830463","doi":"https://doi.org/10.1371/journal.pcbi.1013343","title":"SuperEdgeGO: Edge-supervised graph representation learning for enhanced protein function prediction","display_name":"SuperEdgeGO: Edge-supervised graph representation learning for enhanced protein function prediction","publication_year":2025,"publication_date":"2025-08-01","ids":{"openalex":"https://openalex.org/W4412830463","doi":"https://doi.org/10.1371/journal.pcbi.1013343","pmid":"https://pubmed.ncbi.nlm.nih.gov/40749031"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1013343","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013343","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1013343","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101822148","display_name":"Shugang Zhang","orcid":"https://orcid.org/0000-0002-9774-9709"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shugang Zhang","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":"https://orcid.org/0000-0002-9774-9709","affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010870435","display_name":"Yuntong Li","orcid":"https://orcid.org/0000-0003-2164-0069"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yuntong Li","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083382988","display_name":"Wenjian Ma","orcid":"https://orcid.org/0000-0001-8725-1029"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Wenjian Ma","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100680312","display_name":"Qing Cai","orcid":"https://orcid.org/0000-0002-0026-0959"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qing Cai","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027494900","display_name":"Jing Qin","orcid":"https://orcid.org/0000-0003-0577-1755"},"institutions":[{"id":"https://openalex.org/I143413998","display_name":"Qingdao University of Science and Technology","ror":"https://ror.org/041j8js14","country_code":"CN","type":"education","lineage":["https://openalex.org/I143413998"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jing Qin","raw_affiliation_strings":["College of Education, Qingdao Hengxing University of Science and Technology, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Education, Qingdao Hengxing University of Science and Technology, Qingdao, China","institution_ids":["https://openalex.org/I143413998"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075836788","display_name":"Xiangpeng Bi","orcid":"https://orcid.org/0000-0003-4712-0870"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiangpeng Bi","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Huasen Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Huasen Jiang","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027890166","display_name":"Xiaoyu Huang","orcid":"https://orcid.org/0000-0002-2691-9037"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoyu Huang","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101905332","display_name":"Zhiqiang Wei","orcid":"https://orcid.org/0000-0002-6965-0162"},"institutions":[{"id":"https://openalex.org/I59028903","display_name":"Ocean University of China","ror":"https://ror.org/04rdtx186","country_code":"CN","type":"education","lineage":["https://openalex.org/I59028903"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zhiqiang Wei","raw_affiliation_strings":["College of Computer Science and Technology, Ocean University of China, Qingdao, China","College of Computer Science and Technology, Qingdao University, Qingdao, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Ocean University of China, Qingdao, China","institution_ids":["https://openalex.org/I59028903"]},{"raw_affiliation_string":"College of Computer Science and Technology, Qingdao University, Qingdao, China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5010870435","https://openalex.org/A5027494900","https://openalex.org/A5027890166","https://openalex.org/A5083382988","https://openalex.org/A5100680312","https://openalex.org/A5101822148","https://openalex.org/A5101905332"],"corresponding_institution_ids":["https://openalex.org/I143413998","https://openalex.org/I59028903"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.6385,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.83980869,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"21","issue":"8","first_page":"e1013343","last_page":"e1013343"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","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/T10044","display_name":"Protein Structure and Dynamics","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/T12254","display_name":"Machine Learning in Bioinformatics","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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9991000294685364,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.671169638633728},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"Protein function prediction","score":0.6535245180130005},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6413556337356567},{"id":"https://openalex.org/keywords/encode","display_name":"ENCODE","score":0.6373531222343445},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.46946656703948975},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4682289958000183},{"id":"https://openalex.org/keywords/enhanced-data-rates-for-gsm-evolution","display_name":"Enhanced Data Rates for GSM Evolution","score":0.46356022357940674},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.4602592885494232},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4545513689517975},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.42612147331237793},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.40286874771118164},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17723843455314636}],"concepts":[{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.671169638633728},{"id":"https://openalex.org/C207060522","wikidata":"https://www.wikidata.org/wiki/Q7251473","display_name":"Protein function prediction","level":4,"score":0.6535245180130005},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6413556337356567},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.6373531222343445},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.46946656703948975},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4682289958000183},{"id":"https://openalex.org/C162307627","wikidata":"https://www.wikidata.org/wiki/Q204833","display_name":"Enhanced Data Rates for GSM Evolution","level":2,"score":0.46356022357940674},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.4602592885494232},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4545513689517975},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.42612147331237793},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.40286874771118164},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17723843455314636},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069553","descriptor_name":"Supervised Machine Learning","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":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"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":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1013343","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013343","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:40749031","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40749031","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:bc76e99397ee4668ae6c6adbac9c4d83","is_oa":true,"landing_page_url":"https://doaj.org/article/bc76e99397ee4668ae6c6adbac9c4d83","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 21, Iss 8, p e1013343 (2025)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12327639","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12327639","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1013343","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013343","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5,"id":"https://metadata.un.org/sdg/12","display_name":"Responsible consumption and production"}],"awards":[{"id":"https://openalex.org/G2467754735","display_name":null,"funder_award_id":"23-2-1-115-zyyd-jch","funder_id":"https://openalex.org/F4320328636","funder_display_name":"Natural Science Foundation of Qingdao"},{"id":"https://openalex.org/G2758031463","display_name":null,"funder_award_id":"B23048","funder_id":"https://openalex.org/F4320327912","funder_display_name":"Higher Education Discipline Innovation Project"},{"id":"https://openalex.org/G4770654476","display_name":null,"funder_award_id":"202561013","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G7406930496","display_name":null,"funder_award_id":"202461008","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G8562008206","display_name":null,"funder_award_id":"62306293","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"},{"id":"https://openalex.org/F4320327912","display_name":"Higher Education Discipline Innovation Project","ror":null},{"id":"https://openalex.org/F4320328636","display_name":"Natural Science Foundation of Qingdao","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W2117486996","https://openalex.org/W2162980545","https://openalex.org/W2558272290","https://openalex.org/W2615066396","https://openalex.org/W2900359059","https://openalex.org/W3005335133","https://openalex.org/W3164046276","https://openalex.org/W3170133949","https://openalex.org/W3177828909","https://openalex.org/W3211795435","https://openalex.org/W3214785274","https://openalex.org/W4220952154","https://openalex.org/W4293046261","https://openalex.org/W4323842603","https://openalex.org/W4324143928","https://openalex.org/W4327550249","https://openalex.org/W4375928910","https://openalex.org/W4382632527","https://openalex.org/W4385245566","https://openalex.org/W4386525718","https://openalex.org/W4386890545","https://openalex.org/W4387701164","https://openalex.org/W4388838206","https://openalex.org/W4400226301","https://openalex.org/W4401700750","https://openalex.org/W4405837413","https://openalex.org/W6600481524","https://openalex.org/W6739901393"],"related_works":["https://openalex.org/W2094822546","https://openalex.org/W4388708026","https://openalex.org/W1969080446","https://openalex.org/W3108941781","https://openalex.org/W1578069856","https://openalex.org/W2134206588","https://openalex.org/W2084200259","https://openalex.org/W2065993463","https://openalex.org/W4400576356","https://openalex.org/W2401071219"],"abstract_inverted_index":{"Understanding":[0],"the":[1,11,37,49,68,77,86,97,107,147,152,175,178,207,220,223,235],"functions":[2],"of":[3,6,13,29,89,109,167,177,185,222,237],"proteins":[4,41],"is":[5],"great":[7],"importance":[8],"for":[9,120,195],"deciphering":[10],"mechanisms":[12],"life":[14],"activities.":[15],"To":[16],"date,":[17],"there":[18],"have":[19,31],"been":[20],"over":[21],"200":[22],"million":[23],"known":[24],"proteins,":[25],"but":[26],"only":[27],"0.2%":[28],"them":[30],"well-annotated":[32],"functional":[33],"terms.":[34],"By":[35],"measuring":[36],"contacts":[38,91,149],"among":[39],"residues,":[40],"can":[42,53],"be":[43,54],"described":[44],"as":[45,199],"graphs":[46,113],"so":[47],"that":[48,130,158],"graph":[50,118,127,193],"leaning":[51],"approaches":[52],"applied":[55],"to":[56,82,92,96,114,145],"learn":[57,115],"protein":[58,93,112,121,153,168,196,238],"representations.":[59],"However,":[60],"existing":[61],"graph-based":[62],"methods":[63,129],"put":[64],"efforts":[65],"in":[66,111,134,188,191,234],"enriching":[67],"residue":[69,90,148],"node":[70],"information":[71,133],"and":[72,95,240],"did":[73],"not":[74],"fully":[75],"exploit":[76],"edge":[78,132,180,186,224],"information,":[79],"which":[80,105,218],"leads":[81],"suboptimal":[83],"representations":[84,194],"considering":[85],"strong":[87],"association":[88],"structures":[94],"functions.":[98,169],"In":[99],"this":[100],"article,":[101],"we":[102,140],"propose":[103],"SuperEdgeGO,":[104],"introduces":[106],"supervision":[108,181,187,225],"edges":[110],"a":[116,135,142,230],"better":[117],"representation":[119],"function":[122,197,239],"prediction.":[123],"Different":[124],"from":[125],"common":[126],"convolution":[128],"uses":[131],"plain":[136],"or":[137],"unsupervised":[138],"way,":[139],"introduce":[141],"supervised":[143],"attention":[144],"encode":[146],"explicitly":[150],"into":[151],"representation.":[154],"Comprehensive":[155],"experiments":[156],"demonstrate":[157],"SuperEdgeGO":[159,189],"achieves":[160],"state-of-the-art":[161],"performance":[162,204,212],"on":[163],"all":[164,206],"three":[165],"categories":[166],"Additional":[170],"ablation":[171,216],"analysis":[172],"further":[173],"proves":[174],"effectiveness":[176,221],"devised":[179],"strategy.":[182,226],"The":[183],"implementation":[184],"resulted":[190],"enhanced":[192],"prediction,":[198],"demonstrated":[200],"by":[201],"its":[202],"superior":[203,211],"across":[205],"evaluated":[208],"categories.":[209],"This":[210,227],"was":[213],"confirmed":[214],"through":[215],"analysis,":[217],"validated":[219],"strategy":[228],"has":[229],"broad":[231],"application":[232],"prospect":[233],"study":[236],"related":[241],"fields.":[242]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
