{"id":"https://openalex.org/W7154955697","doi":"https://doi.org/10.1186/s12859-026-06423-1","title":"TransBindpMHCI: a transformer-based model for pan-specific MHC-I peptide binding prediction","display_name":"TransBindpMHCI: a transformer-based model for pan-specific MHC-I peptide binding prediction","publication_year":2026,"publication_date":"2026-04-20","ids":{"openalex":"https://openalex.org/W7154955697","doi":"https://doi.org/10.1186/s12859-026-06423-1","pmid":"https://pubmed.ncbi.nlm.nih.gov/42010473"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-026-06423-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06423-1","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC 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/10.1186/s12859-026-06423-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070733293","display_name":"Hu Xu","orcid":"https://orcid.org/0000-0002-0429-8217"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]},{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hu Xu","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","School of Computer Science, Shanghai Jiao Tong University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","institution_ids":["https://openalex.org/I4210154480"]},{"raw_affiliation_string":"School of Computer Science, Shanghai Jiao Tong University, Shanghai, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064066586","display_name":"Yuanli Ni","orcid":"https://orcid.org/0000-0003-3645-3979"},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuanli Ni","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134007890","display_name":"Zixuan Chai","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zixuan Chai","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134081362","display_name":"Xuan Cui","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuan Cui","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134069528","display_name":"Xia Lei","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xia Lei","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5134056436","display_name":"Limei Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Limei Liu","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. limeilliu@cqu.edu.cn"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. limeilliu@cqu.edu.cn","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040983243","display_name":"Juanjuan Shan","orcid":"https://orcid.org/0000-0002-0640-1652"},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Juanjuan Shan","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. juanjuansh@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. juanjuansh@gmail.com","institution_ids":["https://openalex.org/I4210154480"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5134089507","display_name":"Cheng Qian","orcid":null},"institutions":[{"id":"https://openalex.org/I4210154480","display_name":"Chongqing Cancer Hospital","ror":"https://ror.org/047d8yx24","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210154480"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Cheng Qian","raw_affiliation_strings":["Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. cqian8634@gmail.com"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Precision Medicine of Cancer, Chongqing Key Laboratory of Translational Research for Cancer Metastasis and Individualized Treatment, Chongqing University Cancer Hospital and Chongqing University School of Medicine, Chongqing, 400030, China. cqian8634@gmail.com","institution_ids":["https://openalex.org/I4210154480"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5040983243","https://openalex.org/A5134056436","https://openalex.org/A5134089507"],"corresponding_institution_ids":["https://openalex.org/I4210154480"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.37015333,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"1","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":0.9595999717712402,"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":0.9595999717712402,"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/T10031","display_name":"T-cell and B-cell Immunology","score":0.01600000075995922,"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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.005100000184029341,"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/peptide","display_name":"Peptide","score":0.5170000195503235},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.44130000472068787},{"id":"https://openalex.org/keywords/plasma-protein-binding","display_name":"Plasma protein binding","score":0.3653999865055084},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.3379000127315521},{"id":"https://openalex.org/keywords/protein-array-analysis","display_name":"Protein Array Analysis","score":0.31630000472068787}],"concepts":[{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.5677000284194946},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.5170000195503235},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5055000185966492},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.44130000472068787},{"id":"https://openalex.org/C51639874","wikidata":"https://www.wikidata.org/wiki/Q167149","display_name":"Plasma protein binding","level":2,"score":0.3653999865055084},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.36079999804496765},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.3379000127315521},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3190000057220459},{"id":"https://openalex.org/C2910703447","wikidata":"https://www.wikidata.org/wiki/Q494918","display_name":"Protein Array Analysis","level":5,"score":0.31630000472068787},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.29030001163482666},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2759999930858612},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.25209999084472656},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.251800000667572}],"mesh":[{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000951","descriptor_name":"Antigens, Neoplasm","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000951","descriptor_name":"Antigens, Neoplasm","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000951","descriptor_name":"Antigens, Neoplasm","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000951","descriptor_name":"Antigens, Neoplasm","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"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":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-026-06423-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06423-1","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:42010473","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42010473","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":"BMC bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:doaj.org/article:e317927cf29b4cd49a31c245dcee7313","is_oa":true,"landing_page_url":"https://doaj.org/article/e317927cf29b4cd49a31c245dcee7313","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 27, Iss 1 (2026)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13231681","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13231681/","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-026-06423-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-026-06423-1","pdf_url":null,"source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G556751361","display_name":null,"funder_award_id":"2022YFC3401600","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G716451922","display_name":null,"funder_award_id":"2023CDJKYJH001","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G951406584","display_name":null,"funder_award_id":"82120108019","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":35,"referenced_works":["https://openalex.org/W1994048581","https://openalex.org/W2021472146","https://openalex.org/W2053707749","https://openalex.org/W2053931156","https://openalex.org/W2110574412","https://openalex.org/W2125732073","https://openalex.org/W2134378878","https://openalex.org/W2180512905","https://openalex.org/W2271914738","https://openalex.org/W2588457489","https://openalex.org/W2741742659","https://openalex.org/W2743893844","https://openalex.org/W2793542493","https://openalex.org/W2885999655","https://openalex.org/W2941612414","https://openalex.org/W2998313390","https://openalex.org/W3009889677","https://openalex.org/W3024570138","https://openalex.org/W3037875124","https://openalex.org/W3042910002","https://openalex.org/W3092204627","https://openalex.org/W3124720941","https://openalex.org/W3129412675","https://openalex.org/W3159316433","https://openalex.org/W3206585172","https://openalex.org/W4213442759","https://openalex.org/W4220655797","https://openalex.org/W4224297582","https://openalex.org/W4313547267","https://openalex.org/W4367049014","https://openalex.org/W4384934897","https://openalex.org/W4388994149","https://openalex.org/W4405523896","https://openalex.org/W4405892444","https://openalex.org/W4412692505"],"related_works":[],"abstract_inverted_index":{"Human":[0],"leukocyte":[1],"antigen":[2,10],"(HLA)":[3],"molecules":[4],"play":[5],"a":[6,73],"pivotal":[7],"role":[8],"in":[9,55,153],"presentation.":[11,104],"Tumor":[12],"cells":[13,27],"present":[14],"neoantigens":[15,49],"on":[16],"the":[17,45,93,97,160],"cell":[18],"surface":[19],"via":[20],"HLA":[21],"molecules,":[22],"thereby":[23],"activating":[24],"cytotoxic":[25],"T":[26],"and":[28,40,60,103,134,141,157,176],"eliciting":[29],"immune":[30],"responses.":[31],"This":[32,166],"process":[33],"offers":[34],"critical":[35],"opportunities":[36],"for":[37,91,115,138,171],"cancer":[38],"immunotherapy":[39],"tumor":[41,48,173],"vaccine":[42,178],"development.":[43],"However,":[44],"identification":[46,161],"of":[47,63,100,162],"remains":[50],"challenging":[51],"due":[52],"to":[53,128],"limitations":[54],"data":[56],"scale,":[57],"prediction":[58,82,126],"accuracy,":[59,154],"cross-species":[61,136],"compatibility":[62,137],"existing":[64,151],"methods.":[65],"To":[66],"address":[67],"these":[68],"challenges,":[69],"we":[70],"developed":[71],"TransBindpMHCI,":[72],"transformer-based":[74],"pan-specific":[75],"major":[76],"histocompatibility":[77],"complex":[78],"(MHC)":[79],"peptide":[80,101],"binding":[81,117],"model.":[83],"By":[84],"employing":[85],"1,404,492":[86],"mass":[87],"spectrometry-screened":[88],"MHC-presented":[89],"peptides":[90,129],"modeling,":[92],"model":[94,167],"directly":[95],"captures":[96],"authentic":[98],"processes":[99],"generation":[102],"Its":[105],"dual-tier":[106],"transformer":[107],"encoder":[108],"architecture":[109],"significantly":[110],"enhances":[111],"feature":[112],"extraction":[113],"capabilities":[114],"peptide-MHC":[116],"patterns":[118],"while":[119],"reducing":[120],"computational":[121,155],"complexity.":[122],"Furthermore,":[123],"TransBindpMHCI":[124,149],"extends":[125],"coverage":[127],"spanning":[130],"8\u201315":[131],"amino":[132],"acids":[133],"achieves":[135],"both":[139],"human":[140],"murine":[142],"MHC-I":[143],"molecules.":[144],"Comprehensive":[145],"evaluations":[146],"demonstrate":[147],"that":[148],"outperforms":[150],"methods":[152],"efficiency,":[156],"generalizability,":[158],"enabling":[159],"more":[163],"immunogenic":[164],"neoantigens.":[165],"holds":[168],"substantial":[169],"promise":[170],"advancing":[172],"neoantigen":[174],"validation":[175],"personalized":[177],"design.":[179]},"counts_by_year":[],"updated_date":"2026-07-30T17:31:21.811387","created_date":"2026-04-21T00:00:00"}
