{"id":"https://openalex.org/W4412375415","doi":"https://doi.org/10.1093/bib/bbaf327","title":"A roadmap for T cell receptor-peptide-bound major histocompatibility complex binding prediction by machine learning: glimpse and foresight","display_name":"A roadmap for T cell receptor-peptide-bound major histocompatibility complex binding prediction by machine learning: glimpse and foresight","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412375415","doi":"https://doi.org/10.1093/bib/bbaf327","pmid":"https://pubmed.ncbi.nlm.nih.gov/40652935"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf327","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf327/63737029/bbaf327.pdf","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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://academic.oup.com/bib/article-pdf/26/4/bbaf327/63737029/bbaf327.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057854558","display_name":"Furong Qi","orcid":"https://orcid.org/0000-0001-8323-0925"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Furong Qi","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011517945","display_name":"Qiang Huang","orcid":"https://orcid.org/0000-0002-5949-1225"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiang Huang","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102663175","display_name":"Xuan Yao","orcid":null},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yao Xuan","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010036110","display_name":"Yingyin Cao","orcid":null},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yingyin Cao","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103025743","display_name":"Yunyun Shen","orcid":"https://orcid.org/0000-0001-8266-9303"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yunyun Shen","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026507360","display_name":"Yihan Ren","orcid":"https://orcid.org/0009-0001-8606-7745"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yihan Ren","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115595442","display_name":"Zhe Liu","orcid":"https://orcid.org/0009-0004-1429-9207"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhe Liu","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]},{"author_position":"last","author":{"id":null,"display_name":"Zheng Zhang","orcid":"https://orcid.org/0000-0002-3544-1389"},"institutions":[{"id":"https://openalex.org/I3045169105","display_name":"Southern University of Science and Technology","ror":"https://ror.org/049tv2d57","country_code":"CN","type":"education","lineage":["https://openalex.org/I3045169105"]},{"id":"https://openalex.org/I4210166055","display_name":"Shenzhen Third People\u2019s Hospital","ror":"https://ror.org/04xfsbk97","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210166055"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zheng Zhang","raw_affiliation_strings":["Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,"],"raw_orcid":"https://orcid.org/0000-0002-3544-1389","affiliations":[{"raw_affiliation_string":"Institute for Hepatology, National Clinical Research Center for Infectious Disease, Shenzhen Third People\u2019s Hospital, The Second Affiliated Hospital, School of Medicine, Southern University of Science and Technology , Shenzhen 518112, Guangdong Province ,","institution_ids":["https://openalex.org/I4210166055","https://openalex.org/I3045169105"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.3048,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.79579283,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"26","issue":"4","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":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/T12576","display_name":"vaccines and immunoinformatics approaches","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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.9995999932289124,"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"}},{"id":"https://openalex.org/T10031","display_name":"T-cell and B-cell Immunology","score":0.9983999729156494,"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/t-cell-receptor","display_name":"T-cell receptor","score":0.7652888894081116},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.6781575679779053},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5764963626861572},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5527328252792358},{"id":"https://openalex.org/keywords/cytotoxic-t-cell","display_name":"Cytotoxic T cell","score":0.4784022271633148},{"id":"https://openalex.org/keywords/t-cell","display_name":"T cell","score":0.45586326718330383},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4325462579727173},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.33910679817199707},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.31740128993988037},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.28453078866004944},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.2407059371471405}],"concepts":[{"id":"https://openalex.org/C19317047","wikidata":"https://www.wikidata.org/wiki/Q412037","display_name":"T-cell receptor","level":4,"score":0.7652888894081116},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.6781575679779053},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5764963626861572},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5527328252792358},{"id":"https://openalex.org/C154317977","wikidata":"https://www.wikidata.org/wiki/Q376266","display_name":"Cytotoxic T cell","level":3,"score":0.4784022271633148},{"id":"https://openalex.org/C2776090121","wikidata":"https://www.wikidata.org/wiki/Q193529","display_name":"T cell","level":3,"score":0.45586326718330383},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4325462579727173},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.33910679817199707},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.31740128993988037},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28453078866004944},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.2407059371471405},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C202751555","wikidata":"https://www.wikidata.org/wiki/Q221681","display_name":"In vitro","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","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":"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":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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":"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":"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":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013602","descriptor_name":"T-Lymphocytes, Cytotoxic","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf327","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf327/63737029/bbaf327.pdf","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40652935","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40652935","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:12256107","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12256107","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf327","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf327/63737029/bbaf327.pdf","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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/G1795945888","display_name":null,"funder_award_id":"2021YFC2301905","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G2301646494","display_name":null,"funder_award_id":"82025022","funder_id":"https://openalex.org/F4320336125","funder_display_name":"National Science Fund for Distinguished Young Scholars"},{"id":"https://openalex.org/G3956938802","display_name":null,"funder_award_id":"2023YFC2306400","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G7325361697","display_name":null,"funder_award_id":"2024M762144","funder_id":"https://openalex.org/F4320321543","funder_display_name":"China Postdoctoral Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320321543","display_name":"China Postdoctoral Science Foundation","ror":"https://ror.org/0426zh255"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null},{"id":"https://openalex.org/F4320336125","display_name":"National Science Fund for Distinguished Young Scholars","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4412375415.pdf","grobid_xml":"https://content.openalex.org/works/W4412375415.grobid-xml"},"referenced_works_count":126,"referenced_works":["https://openalex.org/W1574493485","https://openalex.org/W1893868216","https://openalex.org/W1967195968","https://openalex.org/W1968897594","https://openalex.org/W1972115082","https://openalex.org/W1978518799","https://openalex.org/W1994048581","https://openalex.org/W2008814828","https://openalex.org/W2011756793","https://openalex.org/W2014731953","https://openalex.org/W2021310372","https://openalex.org/W2067069532","https://openalex.org/W2078866994","https://openalex.org/W2089374733","https://openalex.org/W2110694683","https://openalex.org/W2111387452","https://openalex.org/W2117333383","https://openalex.org/W2120518061","https://openalex.org/W2122854841","https://openalex.org/W2124685769","https://openalex.org/W2130473166","https://openalex.org/W2132164705","https://openalex.org/W2143210482","https://openalex.org/W2144223273","https://openalex.org/W2145831493","https://openalex.org/W2146074801","https://openalex.org/W2153953580","https://openalex.org/W2153983456","https://openalex.org/W2154019529","https://openalex.org/W2156393136","https://openalex.org/W2170564629","https://openalex.org/W2172893229","https://openalex.org/W2271914738","https://openalex.org/W2514929667","https://openalex.org/W2572080171","https://openalex.org/W2597249067","https://openalex.org/W2615065404","https://openalex.org/W2670890989","https://openalex.org/W2671261300","https://openalex.org/W2763756177","https://openalex.org/W2789013284","https://openalex.org/W2803170063","https://openalex.org/W2898389621","https://openalex.org/W2912018962","https://openalex.org/W2965373594","https://openalex.org/W2968803773","https://openalex.org/W2979326653","https://openalex.org/W2979330275","https://openalex.org/W2980789587","https://openalex.org/W3004537277","https://openalex.org/W3017134886","https://openalex.org/W3020331344","https://openalex.org/W3024570138","https://openalex.org/W3042910002","https://openalex.org/W3047127476","https://openalex.org/W3048782167","https://openalex.org/W3080758869","https://openalex.org/W3093383535","https://openalex.org/W3113525558","https://openalex.org/W3116512470","https://openalex.org/W3127841695","https://openalex.org/W3135351475","https://openalex.org/W3138156743","https://openalex.org/W3146944767","https://openalex.org/W3153787221","https://openalex.org/W3159295432","https://openalex.org/W3160101264","https://openalex.org/W3160420762","https://openalex.org/W3166730506","https://openalex.org/W3167871643","https://openalex.org/W3168160486","https://openalex.org/W3177500196","https://openalex.org/W3177828909","https://openalex.org/W3187834303","https://openalex.org/W3196626346","https://openalex.org/W3198659451","https://openalex.org/W3198942356","https://openalex.org/W3202105508","https://openalex.org/W3202574962","https://openalex.org/W3217772429","https://openalex.org/W4200276175","https://openalex.org/W4220655797","https://openalex.org/W4220887281","https://openalex.org/W4223569251","https://openalex.org/W4224120598","https://openalex.org/W4224249600","https://openalex.org/W4226224447","https://openalex.org/W4226300357","https://openalex.org/W4229451133","https://openalex.org/W4280654322","https://openalex.org/W4286631898","https://openalex.org/W4288066876","https://openalex.org/W4291624945","https://openalex.org/W4292566556","https://openalex.org/W4296694188","https://openalex.org/W4308637256","https://openalex.org/W4309039962","https://openalex.org/W4311619464","https://openalex.org/W4313492115","https://openalex.org/W4317532687","https://openalex.org/W4319455163","https://openalex.org/W4321748869","https://openalex.org/W4323320132","https://openalex.org/W4323974789","https://openalex.org/W4360999048","https://openalex.org/W4368357399","https://openalex.org/W4377093052","https://openalex.org/W4381149624","https://openalex.org/W4383550741","https://openalex.org/W4384934897","https://openalex.org/W4385446873","https://openalex.org/W4385564176","https://openalex.org/W4385693120","https://openalex.org/W4386495900","https://openalex.org/W4387772748","https://openalex.org/W4387966169","https://openalex.org/W4388024559","https://openalex.org/W4388072673","https://openalex.org/W4388847467","https://openalex.org/W4389262331","https://openalex.org/W4389614980","https://openalex.org/W4389920712","https://openalex.org/W4391042215","https://openalex.org/W4392561142","https://openalex.org/W4393905722","https://openalex.org/W4394786758"],"related_works":["https://openalex.org/W2011835836","https://openalex.org/W2089872551","https://openalex.org/W1973836350","https://openalex.org/W2038509173","https://openalex.org/W2136036540","https://openalex.org/W2075125040","https://openalex.org/W2113488569","https://openalex.org/W3032468696","https://openalex.org/W2176905394","https://openalex.org/W2040128205"],"abstract_inverted_index":{"Cytotoxic":[0],"T":[1,21],"lymphocytes":[2],"(CTLs)":[3],"play":[4],"a":[5,51,132],"key":[6,92],"role":[7],"in":[8,85,96],"the":[9,27,59,91,102,118,163],"defense":[10],"of":[11,44,64,106,134,165],"cancer":[12],"and":[13,34,39,47,62,104,151,156,169],"infectious":[14],"diseases.":[15],"CTLs":[16,46,66],"are":[17,79],"mainly":[18],"activated":[19],"by":[20],"cell":[22],"receptors":[23],"(TCRs)":[24],"after":[25],"recognizing":[26],"peptide-bound":[28],"class":[29],"I":[30],"major":[31],"histocompatibility":[32],"complex,":[33],"subsequently":[35],"kill":[36],"virus-infected":[37],"cells":[38],"tumor":[40],"cells.":[41],"Therefore,":[42],"identification":[43,61],"antigen-specific":[45,65],"their":[48],"TCRs":[49],"is":[50,67],"promising":[52],"agent":[53],"for":[54,76,112],"T-cell":[55,166],"based":[56,167],"intervention.":[57],"Currently,":[58],"experimental":[60],"validation":[63],"well-used":[68],"but":[69],"extremely":[70],"resource-intensive.":[71],"The":[72],"machine":[73,109,122],"learning":[74,110,123],"methods":[75,124],"TCR-pMHC":[77,97,113,135,143],"prediction":[78,145],"growing":[80],"interest":[81],"particularly":[82],"with":[83,120],"advances":[84],"single-cell":[86],"technologies.":[87],"This":[88,137,159],"review":[89,160],"clarifies":[90],"biological":[93],"processes":[94],"involved":[95],"binding.":[98],"After":[99],"comprehensively":[100],"comparing":[101],"advantages":[103],"disadvantages":[105],"several":[107],"state-of-the-art":[108],"algorithms":[111],"prediction,":[114],"we":[115,130],"point":[116],"out":[117],"discrepancies":[119],"these":[121],"under":[125],"specific":[126],"disease":[127],"conditions.":[128],"Finally,":[129],"proposed":[131],"roadmap":[133,138],"prediction.":[136],"would":[139],"enable":[140],"more":[141],"accurate":[142],"binding":[144],"when":[146],"improving":[147],"data":[148],"quality,":[149],"encoding":[150],"embedding":[152],"methods,":[153],"training":[154],"models,":[155],"application":[157],"context.":[158],"could":[161],"facilitate":[162],"development":[164],"vaccines":[168],"therapy.":[170]},"counts_by_year":[{"year":2026,"cited_by_count":3}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
