{"id":"https://openalex.org/W4411623114","doi":"https://doi.org/10.1093/bib/bbaf292","title":"Graph-RPI: predicting RNA\u2013protein interactions via graph autoencoder and self-supervised learning strategies","display_name":"Graph-RPI: predicting RNA\u2013protein interactions via graph autoencoder and self-supervised learning strategies","publication_year":2025,"publication_date":"2025-05-01","ids":{"openalex":"https://openalex.org/W4411623114","doi":"https://doi.org/10.1093/bib/bbaf292","pmid":"https://pubmed.ncbi.nlm.nih.gov/40548542"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf292","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf292","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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":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":"gold","oa_url":"https://doi.org/10.1093/bib/bbaf292","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100597582","display_name":"Jiahui Guan","orcid":"https://orcid.org/0009-0001-0584-0637"},"institutions":[{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]},{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["CN","HK"],"is_corresponding":true,"raw_author_name":"Jiahui Guan","raw_affiliation_strings":["Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,","Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,"],"raw_orcid":"https://orcid.org/0009-0007-2839-2199","affiliations":[{"raw_affiliation_string":"Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078222868","display_name":"Lantian Yao","orcid":"https://orcid.org/0000-0003-4554-6827"},"institutions":[{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lantian Yao","raw_affiliation_strings":["Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,"],"raw_orcid":"https://orcid.org/0000-0003-4554-6827","affiliations":[{"raw_affiliation_string":"Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]},{"raw_affiliation_string":"School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101189636","display_name":"Peilin Xie","orcid":null},"institutions":[{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peilin Xie","raw_affiliation_strings":["Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]},{"raw_affiliation_string":"School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112842517","display_name":"Zhihao Zhao","orcid":"https://orcid.org/0009-0004-8973-8622"},"institutions":[{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhihao Zhao","raw_affiliation_strings":["Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112193560","display_name":"Danhua Meng","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Dian Meng","raw_affiliation_strings":["Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002567070","display_name":"Tzong-Yi Lee","orcid":"https://orcid.org/0009-0002-0283-7712"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I4210100097","display_name":"Institute of Bioinformatics and Systems Biology","ror":"https://ror.org/0127fwn18","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672","https://openalex.org/I4210100097"]}],"countries":["DE","TW"],"is_corresponding":false,"raw_author_name":"Tzong-Yi Lee","raw_affiliation_strings":["Center for Intelligent Drug Systems and Smart Bio-Devices (IDS2B) , National Yang Ming Chiao Tung University, 300 Hsinchu,","Institute of Bioinformatics and Systems Biology , National Yang Ming Chiao Tung University, Hsinchu,"],"raw_orcid":"https://orcid.org/0009-0002-0283-7712","affiliations":[{"raw_affiliation_string":"Center for Intelligent Drug Systems and Smart Bio-Devices (IDS2B) , National Yang Ming Chiao Tung University, 300 Hsinchu,","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology , National Yang Ming Chiao Tung University, Hsinchu,","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I4210100097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100704433","display_name":"Junwen Wang","orcid":"https://orcid.org/0000-0002-4432-4707"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Junwen Wang","raw_affiliation_strings":["Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,"],"raw_orcid":"https://orcid.org/0000-0002-4432-4707","affiliations":[{"raw_affiliation_string":"Division of Applied Oral Sciences and Community Dental Care , Faculty of Dentistry, The University of Hong Kong, 34 Hospital Road, Hong Kong SAR,","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058640779","display_name":"Ying\u2010Chih Chiang","orcid":"https://orcid.org/0000-0002-1585-7213"},"institutions":[{"id":"https://openalex.org/I4210116924","display_name":"Chinese University of Hong Kong, Shenzhen","ror":"https://ror.org/02d5ks197","country_code":"CN","type":"education","lineage":["https://openalex.org/I177725633","https://openalex.org/I180726961","https://openalex.org/I4210116924"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying-Chih Chiang","raw_affiliation_strings":["Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Kobilka Institute of Innovative Drug Discovery , School of Medicine, The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]},{"raw_affiliation_string":"School of Science and Engineering , The Chinese University of Hong Kong, Shenzhen, 2001 Longxiang Road, 518172, Shenzhen,","institution_ids":["https://openalex.org/I4210116924"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5100597582"],"corresponding_institution_ids":["https://openalex.org/I4210116924","https://openalex.org/I889458895"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.9989,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.8640553,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"26","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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/T10604","display_name":"RNA Research and Splicing","score":0.9998000264167786,"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/T11482","display_name":"RNA modifications and cancer","score":0.9998000264167786,"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/computer-science","display_name":"Computer science","score":0.7302770614624023},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.629654049873352},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.6125167608261108},{"id":"https://openalex.org/keywords/autoencoder","display_name":"Autoencoder","score":0.5761563777923584},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5731927156448364},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5518263578414917},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.3134606182575226},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.22827544808387756},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.08785372972488403}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7302770614624023},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.629654049873352},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.6125167608261108},{"id":"https://openalex.org/C101738243","wikidata":"https://www.wikidata.org/wiki/Q786435","display_name":"Autoencoder","level":3,"score":0.5761563777923584},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5731927156448364},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5518263578414917},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.3134606182575226},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.22827544808387756},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.08785372972488403},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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}],"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":"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":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098446","descriptor_name":"Autoencoder","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":"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":"D000465","descriptor_name":"Algorithms","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":"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":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbaf292","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf292","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40548542","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40548542","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:europepmc.org:11013158","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12205962","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:hub.hku.hk:10722/357988","is_oa":false,"landing_page_url":"https://hub.hku.hk/handle/10722/357988","pdf_url":null,"source":{"id":"https://openalex.org/S4377196271","display_name":"The HKU Scholars Hub (University of Hong Kong)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I889458895","host_organization_name":"University of Hong Kong","host_organization_lineage":["https://openalex.org/I889458895"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf292","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf292","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":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":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":[{"score":0.6200000047683716,"display_name":"Decent work and economic growth","id":"https://metadata.un.org/sdg/8"}],"awards":[{"id":"https://openalex.org/G2918762292","display_name":null,"funder_award_id":"113-2321-BA49- 025","funder_id":"https://openalex.org/F2461203286","funder_display_name":"National Science and Technology Council"},{"id":"https://openalex.org/G3250728813","display_name":null,"funder_award_id":"113-2221-E-A49-160-MY3","funder_id":"https://openalex.org/F2461203286","funder_display_name":"National Science and Technology Council"},{"id":"https://openalex.org/G7555832125","display_name":null,"funder_award_id":"JCYJ20230807114206014","funder_id":"https://openalex.org/F4320326705","funder_display_name":"Science, Technology and Innovation Commission of Shenzhen Municipality"},{"id":"https://openalex.org/G902987778","display_name":null,"funder_award_id":"NHRI-EX114-11320BI","funder_id":"https://openalex.org/F4320322845","funder_display_name":"National Health Research Institutes"}],"funders":[{"id":"https://openalex.org/F2461203286","display_name":"National Science and Technology Council","ror":"https://ror.org/02kv4zf79"},{"id":"https://openalex.org/F4320322845","display_name":"National Health Research Institutes","ror":"https://ror.org/02r6fpx29"},{"id":"https://openalex.org/F4320326705","display_name":"Science, Technology and Innovation Commission of Shenzhen Municipality","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":86,"referenced_works":["https://openalex.org/W2638695","https://openalex.org/W1565746575","https://openalex.org/W1842452185","https://openalex.org/W1993711987","https://openalex.org/W1996768014","https://openalex.org/W2025150647","https://openalex.org/W2029667189","https://openalex.org/W2034767282","https://openalex.org/W2044955175","https://openalex.org/W2057633723","https://openalex.org/W2064515831","https://openalex.org/W2072394638","https://openalex.org/W2074231493","https://openalex.org/W2093897670","https://openalex.org/W2108051165","https://openalex.org/W2110065044","https://openalex.org/W2119501676","https://openalex.org/W2130479394","https://openalex.org/W2137070227","https://openalex.org/W2138045300","https://openalex.org/W2145957695","https://openalex.org/W2148952454","https://openalex.org/W2161536174","https://openalex.org/W2174602966","https://openalex.org/W2187089797","https://openalex.org/W2189079317","https://openalex.org/W2329659234","https://openalex.org/W2336850185","https://openalex.org/W2507804718","https://openalex.org/W2511674064","https://openalex.org/W2556500313","https://openalex.org/W2603220903","https://openalex.org/W2758088381","https://openalex.org/W2767404761","https://openalex.org/W2786230719","https://openalex.org/W2795167067","https://openalex.org/W2808409763","https://openalex.org/W2895601856","https://openalex.org/W2898598946","https://openalex.org/W2907492528","https://openalex.org/W2917724292","https://openalex.org/W2962862931","https://openalex.org/W2971428843","https://openalex.org/W3006437689","https://openalex.org/W3028467496","https://openalex.org/W3038313148","https://openalex.org/W3080456792","https://openalex.org/W3085084733","https://openalex.org/W3085380432","https://openalex.org/W3094603827","https://openalex.org/W3100038904","https://openalex.org/W3126232929","https://openalex.org/W3136918052","https://openalex.org/W3152893301","https://openalex.org/W3163379025","https://openalex.org/W3187167951","https://openalex.org/W4220660070","https://openalex.org/W4225460848","https://openalex.org/W4281480754","https://openalex.org/W4283770085","https://openalex.org/W4290876361","https://openalex.org/W4295312788","https://openalex.org/W4297733535","https://openalex.org/W4298005726","https://openalex.org/W4307645443","https://openalex.org/W4312222690","https://openalex.org/W4327550249","https://openalex.org/W4367043522","https://openalex.org/W4385567478","https://openalex.org/W4386305688","https://openalex.org/W4389378102","https://openalex.org/W4389918314","https://openalex.org/W4390035122","https://openalex.org/W4390743833","https://openalex.org/W4390908043","https://openalex.org/W4396593457","https://openalex.org/W4396663720","https://openalex.org/W4396721167","https://openalex.org/W6660313310","https://openalex.org/W6666647181","https://openalex.org/W6673126361","https://openalex.org/W6680166665","https://openalex.org/W6682563312","https://openalex.org/W6737947904","https://openalex.org/W6766978945","https://openalex.org/W6783213970"],"related_works":["https://openalex.org/W3013693939","https://openalex.org/W2566616303","https://openalex.org/W2159052453","https://openalex.org/W3131327266","https://openalex.org/W2734887215","https://openalex.org/W2803255133","https://openalex.org/W4297051394","https://openalex.org/W2752972570","https://openalex.org/W4386815338","https://openalex.org/W2891286602"],"abstract_inverted_index":{"RNA-protein":[0],"interactions":[1],"(RPIs)":[2],"are":[3,10,20],"essential":[4],"for":[5,17,88,161],"many":[6],"biological":[7,163],"functions":[8],"and":[9,22,57,65,83,107,116,153,165],"associated":[11],"with":[12,142],"various":[13],"diseases.":[14],"Traditional":[15],"methods":[16],"detecting":[18],"RPIs":[19],"labor-intensive":[21],"costly,":[23],"necessitating":[24],"efficient":[25],"computational":[26],"methods.":[27],"In":[28],"this":[29],"study,":[30],"we":[31],"proposed":[32],"a":[33,70],"novel":[34],"sequence-based":[35],"RPI":[36,78,139,145,156,167],"prediction":[37,146],"framework":[38],"based":[39],"on":[40,109],"graph":[41],"neural":[42],"networks":[43],"(GNNs)":[44],"that":[45],"addressed":[46],"key":[47],"limitations":[48],"of":[49,77,101,134],"existing":[50,128],"methods,":[51,129,147],"such":[52],"as":[53,67],"inadequate":[54],"feature":[55],"integration":[56],"negative":[58],"sample":[59],"construction.":[60],"Our":[61],"method":[62,126],"represented":[63],"RNAs":[64],"proteins":[66],"nodes":[68],"in":[69,121,155],"unified":[71],"interaction":[72],"graph,":[73],"enhancing":[74],"the":[75,110],"representation":[76],"pairs":[79],"through":[80,96],"multi-feature":[81],"fusion":[82],"employing":[84],"self-supervised":[85],"learning":[86],"strategies":[87],"model":[89],"training.":[90],"The":[91],"model's":[92],"performance":[93],"was":[94],"validated":[95],"five-fold":[97],"cross-validation,":[98],"achieving":[99,130],"accuracy":[100,133],"0.880,":[102],"0.811,":[103],"0.950,":[104],"0.979,":[105],"0.910,":[106],"0.924":[108],"RPI488,":[111],"RPI369,":[112],"RPI2241,":[113],"RPI1807,":[114],"RPI1446,":[115],"RPImerged":[117],"datasets,":[118],"respectively.":[119],"Additionally,":[120],"cross-species":[122],"generalization":[123],"tests,":[124],"our":[125,148],"outperformed":[127],"an":[131],"overall":[132],"0.989":[135],"across":[136],"10":[137],"093":[138],"pairs.":[140],"Compared":[141],"other":[143],"state-of-the-art":[144],"approach":[149],"demonstrates":[150],"greater":[151],"robustness":[152],"stability":[154],"prediction,":[157],"highlighting":[158],"its":[159],"potential":[160],"broad":[162],"applications":[164],"large-scale":[166],"analysis.":[168]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":1}],"updated_date":"2026-05-10T08:33:47.465468","created_date":"2025-10-10T00:00:00"}
