{"id":"https://openalex.org/W7138048836","doi":"https://doi.org/10.1093/bib/bbag123","title":"AI-driven computational methods and benchmarking for T-cell antigen identification","display_name":"AI-driven computational methods and benchmarking for T-cell antigen identification","publication_year":2026,"publication_date":"2026-02-26","ids":{"openalex":"https://openalex.org/W7138048836","doi":"https://doi.org/10.1093/bib/bbag123","pmid":"https://pubmed.ncbi.nlm.nih.gov/41841601"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbag123","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag123","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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/bbag123","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5129660465","display_name":"Yang Deng","orcid":null},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yang Deng","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001004879","display_name":"Jinhao Que","orcid":"https://orcid.org/0000-0002-6129-9128"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinhao Que","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040431394","display_name":"Guangfu Xue","orcid":"https://orcid.org/0000-0002-5718-2314"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guangfu Xue","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010917006","display_name":"Yideng Cai","orcid":"https://orcid.org/0000-0003-3820-1804"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yideng Cai","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100304036","display_name":"Wenyi Yang","orcid":"https://orcid.org/0009-0008-1176-0343"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenyi Yang","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100449840","display_name":"Yilin Wang","orcid":"https://orcid.org/0000-0001-5320-0274"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yilin Wang","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103636745","display_name":"Yi Hui","orcid":null},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yi Hui","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050953393","display_name":"Zuxiang Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zuxiang Wang","raw_affiliation_strings":["School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101543881","display_name":"Yu Lin","orcid":"https://orcid.org/0000-0001-5033-3733"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yi Lin","raw_affiliation_strings":["School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065919151","display_name":"Wenyang Zhou","orcid":"https://orcid.org/0000-0002-3676-0584"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wenyang Zhou","raw_affiliation_strings":["School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018722475","display_name":"Zhaochun Xu","orcid":"https://orcid.org/0000-0003-1799-5529"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhaochun Xu","raw_affiliation_strings":["School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5129658725","display_name":"Qinghua Jiang","orcid":null},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]},{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]},{"id":"https://openalex.org/I4210161462","display_name":"Heilongjiang Institute of Technology","ror":"https://ror.org/05x0m9n95","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210161462"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qinghua Jiang","raw_affiliation_strings":["Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Life Science and Technology, Harbin Institute of Technology , 92 Xidazhi Street, Nangang District, Harbin, 150000 Heilongjiang Province,","institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"]},{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046064242","display_name":"Haoxiu Sun","orcid":"https://orcid.org/0000-0001-9339-5790"},"institutions":[{"id":"https://openalex.org/I156144747","display_name":"Harbin Medical University","ror":"https://ror.org/05jscf583","country_code":"CN","type":"education","lineage":["https://openalex.org/I156144747"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haoxiu Sun","raw_affiliation_strings":["School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Interdisciplinary Medicine and Engineering, Harbin Medical University , 157 Baojian Road, Nangang District, Harbin, 150076 Heilongjiang Province,","institution_ids":["https://openalex.org/I156144747"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5129660465"],"corresponding_institution_ids":["https://openalex.org/I204983213","https://openalex.org/I4210161462"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.52883142,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9976999759674072,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9976999759674072,"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":0.0010000000474974513,"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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.00019999999494757503,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.8062000274658203},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.667900025844574},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.6029999852180481},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.5303000211715698},{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.420199990272522},{"id":"https://openalex.org/keywords/computational-model","display_name":"Computational model","score":0.4115999937057495},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.3808000087738037},{"id":"https://openalex.org/keywords/predictive-modelling","display_name":"Predictive modelling","score":0.35589998960494995}],"concepts":[{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.8062000274658203},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6679999828338623},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.667900025844574},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.6029999852180481},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5450000166893005},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.5303000211715698},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.525600016117096},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5092999935150146},{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.420199990272522},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.4115999937057495},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.3808000087738037},{"id":"https://openalex.org/C45804977","wikidata":"https://www.wikidata.org/wiki/Q7239673","display_name":"Predictive modelling","level":2,"score":0.35589998960494995},{"id":"https://openalex.org/C94124525","wikidata":"https://www.wikidata.org/wiki/Q912550","display_name":"Categorization","level":2,"score":0.34700000286102295},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.33070001006126404},{"id":"https://openalex.org/C2779714256","wikidata":"https://www.wikidata.org/wiki/Q25305062","display_name":"Multiple Models","level":2,"score":0.301800012588501},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.29660001397132874},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.2786000072956085},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.2745000123977661},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.2696000039577484},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2646999955177307},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.2612999975681305},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.25279998779296875}],"mesh":[{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D013601","descriptor_name":"T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D013601","descriptor_name":"T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbag123","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag123","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41841601","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41841601","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12993716","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12993716/","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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbag123","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag123","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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/G1728692201","display_name":null,"funder_award_id":"T2325009","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2468572803","display_name":null,"funder_award_id":"U24A20370","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2915948887","display_name":null,"funder_award_id":"32400643","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3455580527","display_name":null,"funder_award_id":"T2495273","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3590877018","display_name":null,"funder_award_id":"92574205","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4342416140","display_name":null,"funder_award_id":"32270789","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6549098544","display_name":null,"funder_award_id":"62032007","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8262482378","display_name":null,"funder_award_id":"32470689","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":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":151,"referenced_works":["https://openalex.org/W1822028895","https://openalex.org/W1994048581","https://openalex.org/W2000251753","https://openalex.org/W2017285544","https://openalex.org/W2019993505","https://openalex.org/W2021439985","https://openalex.org/W2024626836","https://openalex.org/W2026142529","https://openalex.org/W2050407789","https://openalex.org/W2059385530","https://openalex.org/W2066593167","https://openalex.org/W2066930665","https://openalex.org/W2072769447","https://openalex.org/W2073621589","https://openalex.org/W2080956086","https://openalex.org/W2095085751","https://openalex.org/W2097283546","https://openalex.org/W2100412095","https://openalex.org/W2105699887","https://openalex.org/W2120518061","https://openalex.org/W2123169315","https://openalex.org/W2134378878","https://openalex.org/W2143210482","https://openalex.org/W2146074801","https://openalex.org/W2150383532","https://openalex.org/W2163660115","https://openalex.org/W2170518560","https://openalex.org/W2172893229","https://openalex.org/W2204695023","https://openalex.org/W2264544376","https://openalex.org/W2336513938","https://openalex.org/W2584679456","https://openalex.org/W2589139221","https://openalex.org/W2605177850","https://openalex.org/W2607237575","https://openalex.org/W2613978126","https://openalex.org/W2670890989","https://openalex.org/W2671261300","https://openalex.org/W2743893844","https://openalex.org/W2752126733","https://openalex.org/W2755724352","https://openalex.org/W2766169371","https://openalex.org/W2777132551","https://openalex.org/W2782708334","https://openalex.org/W2793542493","https://openalex.org/W2808625215","https://openalex.org/W2898389621","https://openalex.org/W2899327929","https://openalex.org/W2899671321","https://openalex.org/W2951959160","https://openalex.org/W2955439997","https://openalex.org/W2965921152","https://openalex.org/W2966730819","https://openalex.org/W2971826769","https://openalex.org/W2977541300","https://openalex.org/W2995389725","https://openalex.org/W3000893497","https://openalex.org/W3010274200","https://openalex.org/W3014553071","https://openalex.org/W3015538440","https://openalex.org/W3024570138","https://openalex.org/W3040528450","https://openalex.org/W3083537918","https://openalex.org/W3087255036","https://openalex.org/W3090903754","https://openalex.org/W3091991776","https://openalex.org/W3113525558","https://openalex.org/W3122375914","https://openalex.org/W3129297995","https://openalex.org/W3133458480","https://openalex.org/W3134487827","https://openalex.org/W3135351475","https://openalex.org/W3146944767","https://openalex.org/W3154423121","https://openalex.org/W3154965281","https://openalex.org/W3156645689","https://openalex.org/W3160420762","https://openalex.org/W3163602801","https://openalex.org/W3166730506","https://openalex.org/W3172681723","https://openalex.org/W3177500196","https://openalex.org/W3194492341","https://openalex.org/W3196225703","https://openalex.org/W3196626346","https://openalex.org/W3198942356","https://openalex.org/W3202105508","https://openalex.org/W3217516687","https://openalex.org/W4205773061","https://openalex.org/W4207055527","https://openalex.org/W4210421570","https://openalex.org/W4211092047","https://openalex.org/W4213345021","https://openalex.org/W4220655797","https://openalex.org/W4220852564","https://openalex.org/W4225726690","https://openalex.org/W4229452462","https://openalex.org/W4283835519","https://openalex.org/W4286500588","https://openalex.org/W4288066876","https://openalex.org/W4291790128","https://openalex.org/W4295951577","https://openalex.org/W4313492115","https://openalex.org/W4318071656","https://openalex.org/W4319455163","https://openalex.org/W4323320132","https://openalex.org/W4323974789","https://openalex.org/W4327550249","https://openalex.org/W4360999048","https://openalex.org/W4362633841","https://openalex.org/W4366742782","https://openalex.org/W4367550252","https://openalex.org/W4376133743","https://openalex.org/W4377093052","https://openalex.org/W4380225153","https://openalex.org/W4380769213","https://openalex.org/W4384819234","https://openalex.org/W4384934897","https://openalex.org/W4387364108","https://openalex.org/W4387378658","https://openalex.org/W4388966793","https://openalex.org/W4391042215","https://openalex.org/W4393225347","https://openalex.org/W4394786758","https://openalex.org/W4396547514","https://openalex.org/W4398140982","https://openalex.org/W4399546337","https://openalex.org/W4402926399","https://openalex.org/W4403479347","https://openalex.org/W4405529890","https://openalex.org/W4406416798","https://openalex.org/W4406916847","https://openalex.org/W4406924635","https://openalex.org/W4406967625","https://openalex.org/W4407668627","https://openalex.org/W4407722177","https://openalex.org/W4407978845","https://openalex.org/W4408656500","https://openalex.org/W4409486606","https://openalex.org/W4409592168","https://openalex.org/W4409645431","https://openalex.org/W4410743302","https://openalex.org/W4411032083","https://openalex.org/W4411269408","https://openalex.org/W4412017628","https://openalex.org/W4412087241","https://openalex.org/W4412392471","https://openalex.org/W4413786633","https://openalex.org/W4414064899","https://openalex.org/W4414440963","https://openalex.org/W4416034470","https://openalex.org/W4416782318"],"related_works":[],"abstract_inverted_index":{"The":[0],"rise":[1],"of":[2,9,79,102,180,186],"mRNA":[3],"vaccines":[4],"highlights":[5],"the":[6,23,28,32,39,44,66,85,137,171,178,184,203],"pivotal":[7],"role":[8],"T-cell":[10,19,29,72],"antigen":[11,73],"identification":[12],"in":[13,133,210],"modern":[14],"vaccinology":[15],"and":[16,38,84,118,129,155,183],"personalized":[17],"medicine.":[18],"recognition":[20],"relies":[21],"on":[22,115],"sophisticated":[24],"ternary":[25],"interaction":[26],"between":[27],"receptor":[30],"(TCR),":[31],"major":[33],"histocompatibility":[34],"complex":[35,60,87],"(MHC)":[36],"molecule,":[37],"peptide":[40],"antigen,":[41],"which":[42],"forms":[43],"peptide-MHC":[45],"(pMHC)":[46],"complex.":[47],"Computational":[48],"methods,":[49],"particularly":[50],"artificial":[51],"intelligence":[52],"(AI),":[53],"are":[54],"indispensable":[55],"for":[56,71,81,174,189],"accurately":[57],"predicting":[58],"these":[59,167,196],"bindings.":[61],"This":[62,150],"review":[63],"systematically":[64],"surveys":[65],"rapidly":[67],"evolving":[68],"AI-driven":[69],"landscape":[70],"identification,":[74],"providing":[75],"a":[76,98,127,153],"comprehensive":[77],"categorization":[78],"methods":[80],"MHC-I,":[82],"MHC-II,":[83],"highly":[86],"TCR-pMHC":[88,105],"binding":[89],"prediction,":[90],"alongside":[91],"foundational":[92],"data":[93,111],"resources.":[94],"Crucially,":[95],"we":[96,169],"conduct":[97],"rigorous,":[99],"standardized":[100],"benchmarking":[101],"18":[103],"state-of-the-art":[104],"prediction":[106,206],"models":[107,146,188],"across":[108,144],"diverse":[109],"training":[110],"sources.":[112],"Our":[113],"evaluation":[114],"two":[116],"distinct":[117],"challenging":[119],"out-of-distribution":[120],"(OOD)":[121],"unseen":[122],"epitope":[123,163],"variant":[124],"datasets":[125],"reveals":[126],"significant":[128],"concerning":[130],"generalization":[131,157],"gap":[132],"current":[134],"predictors.":[135],"Notably,":[136],"overall":[138],"absolute":[139],"predictive":[140],"gain":[141],"remains":[142],"marginal":[143],"all":[145],"under":[147],"OOD":[148],"conditions.":[149],"result":[151],"underscores":[152],"severe":[154],"persistent":[156],"challenge":[158],"when":[159],"faced":[160],"with":[161],"novel":[162],"variants.":[164],"To":[165],"address":[166],"limitations,":[168],"emphasize":[170],"urgent":[172],"need":[173],"enhanced":[175],"structural":[176],"modeling,":[177],"integration":[179],"multi-omics":[181],"data,":[182],"development":[185],"generative":[187],"de":[190],"novo":[191],"TCR":[192],"design.":[193],"By":[194],"advancing":[195],"computational":[197],"frontiers,":[198],"our":[199],"community":[200],"can":[201],"accelerate":[202],"transition":[204],"from":[205],"to":[207],"rational":[208],"design":[209],"immunoinformatics.":[211]},"counts_by_year":[],"updated_date":"2026-05-05T08:41:31.759640","created_date":"2026-03-18T00:00:00"}
