{"id":"https://openalex.org/W4402926399","doi":"https://doi.org/10.1038/s42256-024-00901-y","title":"Sliding-attention transformer neural architecture for predicting T cell receptor\u2013antigen\u2013human leucocyte antigen binding","display_name":"Sliding-attention transformer neural architecture for predicting T cell receptor\u2013antigen\u2013human leucocyte antigen binding","publication_year":2024,"publication_date":"2024-09-27","ids":{"openalex":"https://openalex.org/W4402926399","doi":"https://doi.org/10.1038/s42256-024-00901-y"},"language":"en","primary_location":{"id":"doi:10.1038/s42256-024-00901-y","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00901-y","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","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":"Nature Machine Intelligence","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://doi.org/10.1038/s42256-024-00901-y","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038403373","display_name":"Ziyan Feng","orcid":"https://orcid.org/0000-0003-2189-1001"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ziyan Feng","raw_affiliation_strings":["Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109731818","display_name":"Jingyang Chen","orcid":"https://orcid.org/0009-0004-6945-8260"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210164150","display_name":"Shanghai Center for Brain Science and Brain-Inspired Technology","ror":"https://ror.org/0551a0y31","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210164150"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingyang Chen","raw_affiliation_strings":["Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210164150"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103206461","display_name":"Youlong Hai","orcid":"https://orcid.org/0000-0003-0742-6867"},"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/I4210144482","display_name":"Shanghai Sixth People's Hospital","ror":"https://ror.org/049zrh188","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210144482"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Youlong Hai","raw_affiliation_strings":["Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0003-0742-6867","affiliations":[{"raw_affiliation_string":"Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China","institution_ids":["https://openalex.org/I183067930","https://openalex.org/I4210144482"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110304008","display_name":"Xuelian Pang","orcid":null},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuelian Pang","raw_affiliation_strings":["Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022927703","display_name":"Kun Zheng","orcid":"https://orcid.org/0000-0002-9658-6215"},"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/I4210144482","display_name":"Shanghai Sixth People's Hospital","ror":"https://ror.org/049zrh188","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210144482"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kun Zheng","raw_affiliation_strings":["Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China","institution_ids":["https://openalex.org/I183067930","https://openalex.org/I4210144482"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101780799","display_name":"Chenglong Xie","orcid":"https://orcid.org/0000-0003-3592-9058"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chenglong Xie","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100623751","display_name":"Xiujuan Zhang","orcid":"https://orcid.org/0000-0002-5312-0909"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiujuan Zhang","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101468543","display_name":"Shengqing Li","orcid":"https://orcid.org/0000-0003-1874-2339"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shengqing Li","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]},{"raw_affiliation_string":"Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Shengqing Li","orcid":null},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shengqing Li","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]},{"raw_affiliation_string":"Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047033898","display_name":"Chengjuan Zhang","orcid":"https://orcid.org/0000-0002-0702-6890"},"institutions":[{"id":"https://openalex.org/I4210143608","display_name":"Henan Cancer Hospital","ror":"https://ror.org/043ek5g31","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210143608"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chengjuan Zhang","raw_affiliation_strings":["Center of Bio-Repository, The Affiliated Cancer Hospital of Zhengzhou University, Henan Cancer Hospital, Zhengzhou, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center of Bio-Repository, The Affiliated Cancer Hospital of Zhengzhou University, Henan Cancer Hospital, Zhengzhou, China","institution_ids":["https://openalex.org/I4210143608"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Kangdong Liu","orcid":"https://orcid.org/0000-0002-4425-5625"},"institutions":[{"id":"https://openalex.org/I38877650","display_name":"Zhengzhou University","ror":"https://ror.org/04ypx8c21","country_code":"CN","type":"education","lineage":["https://openalex.org/I38877650"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kangdong Liu","raw_affiliation_strings":["Department of Pathophysiology, School of Basic Medical Sciences, Zhengzhou University, Zhengzhou, China"],"raw_orcid":"https://orcid.org/0000-0002-4425-5625","affiliations":[{"raw_affiliation_string":"Department of Pathophysiology, School of Basic Medical Sciences, Zhengzhou University, Zhengzhou, China","institution_ids":["https://openalex.org/I38877650"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101838432","display_name":"Lili Zhu","orcid":"https://orcid.org/0000-0002-8712-6743"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lili Zhu","raw_affiliation_strings":["Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China","institution_ids":["https://openalex.org/I143593769"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Xiaoyong Hu","orcid":"https://orcid.org/0009-0009-3626-0852"},"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/I4210144482","display_name":"Shanghai Sixth People's Hospital","ror":"https://ror.org/049zrh188","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210144482"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoyong Hu","raw_affiliation_strings":["Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China"],"raw_orcid":"https://orcid.org/0009-0009-3626-0852","affiliations":[{"raw_affiliation_string":"Department of Urology, Shanghai Sixth People\u2019s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China","institution_ids":["https://openalex.org/I183067930","https://openalex.org/I4210144482"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Shiliang Li","orcid":"https://orcid.org/0000-0003-4414-237X"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shiliang Li","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0003-4414-237X","affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]},{"raw_affiliation_string":"Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Shiliang Li","orcid":"https://orcid.org/0000-0003-4414-237X"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210159575","display_name":"Huashan Hospital","ror":"https://ror.org/05201qm87","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159575"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shiliang Li","raw_affiliation_strings":["Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0003-4414-237X","affiliations":[{"raw_affiliation_string":"Department of Pulmonary and Critical Care Medicine, Huashan Hospital, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210159575"]},{"raw_affiliation_string":"Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100436753","display_name":"Jie Zhang","orcid":"https://orcid.org/0000-0002-5016-9192"},"institutions":[{"id":"https://openalex.org/I24943067","display_name":"Fudan University","ror":"https://ror.org/013q1eq08","country_code":"CN","type":"education","lineage":["https://openalex.org/I24943067"]},{"id":"https://openalex.org/I4210164150","display_name":"Shanghai Center for Brain Science and Brain-Inspired Technology","ror":"https://ror.org/0551a0y31","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210164150"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jie Zhang","raw_affiliation_strings":["Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0002-5016-9192","affiliations":[{"raw_affiliation_string":"Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai, China","institution_ids":["https://openalex.org/I24943067","https://openalex.org/I4210164150"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100710976","display_name":"Kai Zhang","orcid":"https://orcid.org/0000-0001-6297-4423"},"institutions":[{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Kai Zhang","raw_affiliation_strings":["School of Computer Science and Technology, East China Normal University, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0001-6297-4423","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100688144","display_name":"Honglin Li","orcid":"https://orcid.org/0000-0003-2270-1900"},"institutions":[{"id":"https://openalex.org/I143593769","display_name":"East China University of Science and Technology","ror":"https://ror.org/01vyrm377","country_code":"CN","type":"education","lineage":["https://openalex.org/I143593769"]},{"id":"https://openalex.org/I66867065","display_name":"East China Normal University","ror":"https://ror.org/02n96ep67","country_code":"CN","type":"education","lineage":["https://openalex.org/I66867065"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Honglin Li","raw_affiliation_strings":["Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","Lingang Laboratory, Shanghai, China","Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China"],"raw_orcid":"https://orcid.org/0000-0003-2270-1900","affiliations":[{"raw_affiliation_string":"Innovation Center for Artificial Intelligence and Drug Discovery, East China Normal University, Shanghai, China","institution_ids":["https://openalex.org/I66867065"]},{"raw_affiliation_string":"Lingang Laboratory, Shanghai, China","institution_ids":[]},{"raw_affiliation_string":"Shanghai Key Laboratory of New Drug Design, School of Pharmacy, East China University of Science and Technology, Shanghai, China","institution_ids":["https://openalex.org/I143593769"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5100436753","https://openalex.org/A5100688144","https://openalex.org/A5100710976","https://openalex.org/A5101468543"],"corresponding_institution_ids":["https://openalex.org/I143593769","https://openalex.org/I183067930","https://openalex.org/I24943067","https://openalex.org/I4210144482","https://openalex.org/I4210159575","https://openalex.org/I4210164150","https://openalex.org/I66867065"],"apc_list":{"value":11690,"currency":"USD","value_usd":11690},"apc_paid":{"value":11690,"currency":"USD","value_usd":11690},"fwci":6.4074,"has_fulltext":false,"cited_by_count":39,"citation_normalized_percentile":{"value":0.9778793,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"6","issue":"10","first_page":"1216","last_page":"1230"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9973999857902527,"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":0.9973999857902527,"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":0.996399998664856,"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/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.6866007447242737},{"id":"https://openalex.org/keywords/receptor","display_name":"Receptor","score":0.490640789270401},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.35944056510925293},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2990420460700989},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.13086625933647156}],"concepts":[{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.6866007447242737},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.490640789270401},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.35944056510925293},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2990420460700989},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.13086625933647156}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1038/s42256-024-00901-y","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00901-y","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","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":"Nature Machine Intelligence","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1038/s42256-024-00901-y","is_oa":true,"landing_page_url":"https://doi.org/10.1038/s42256-024-00901-y","pdf_url":null,"source":{"id":"https://openalex.org/S2912241403","display_name":"Nature Machine Intelligence","issn_l":"2522-5839","issn":["2522-5839"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319908","host_organization_name":"Nature Portfolio","host_organization_lineage":["https://openalex.org/P4310319908","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Nature Portfolio","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":"Nature Machine Intelligence","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":84,"referenced_works":["https://openalex.org/W1591773746","https://openalex.org/W1919257374","https://openalex.org/W2011458181","https://openalex.org/W2033048068","https://openalex.org/W2067191022","https://openalex.org/W2089041106","https://openalex.org/W2103441770","https://openalex.org/W2106612397","https://openalex.org/W2111441225","https://openalex.org/W2131271579","https://openalex.org/W2138601221","https://openalex.org/W2146290346","https://openalex.org/W2150056019","https://openalex.org/W2155943701","https://openalex.org/W2168688111","https://openalex.org/W2172893229","https://openalex.org/W2299181842","https://openalex.org/W2323326409","https://openalex.org/W2417483443","https://openalex.org/W2586626897","https://openalex.org/W2613978126","https://openalex.org/W2728365508","https://openalex.org/W2752126733","https://openalex.org/W2774113098","https://openalex.org/W2791512052","https://openalex.org/W2802455484","https://openalex.org/W2884561390","https://openalex.org/W2904210127","https://openalex.org/W2904711643","https://openalex.org/W2904803926","https://openalex.org/W2909679049","https://openalex.org/W2911644242","https://openalex.org/W2911871569","https://openalex.org/W2918815995","https://openalex.org/W2937667996","https://openalex.org/W2967717440","https://openalex.org/W2969716533","https://openalex.org/W2972438906","https://openalex.org/W2990308980","https://openalex.org/W2995494055","https://openalex.org/W3008433012","https://openalex.org/W3024570138","https://openalex.org/W3037875124","https://openalex.org/W3040528450","https://openalex.org/W3080758869","https://openalex.org/W3087497783","https://openalex.org/W3091991776","https://openalex.org/W3094560178","https://openalex.org/W3096892312","https://openalex.org/W3106120778","https://openalex.org/W3109872530","https://openalex.org/W3113525558","https://openalex.org/W3122472315","https://openalex.org/W3124720941","https://openalex.org/W3134443156","https://openalex.org/W3138156743","https://openalex.org/W3153787221","https://openalex.org/W3163993681","https://openalex.org/W3194665116","https://openalex.org/W3196225703","https://openalex.org/W3196626346","https://openalex.org/W3198942356","https://openalex.org/W3202459547","https://openalex.org/W3206266376","https://openalex.org/W3209923446","https://openalex.org/W4200002229","https://openalex.org/W4206384730","https://openalex.org/W4210348552","https://openalex.org/W4220655797","https://openalex.org/W4293043553","https://openalex.org/W4304891778","https://openalex.org/W4310493943","https://openalex.org/W4313547267","https://openalex.org/W4319455163","https://openalex.org/W4323320132","https://openalex.org/W4323974789","https://openalex.org/W4360999048","https://openalex.org/W4383371650","https://openalex.org/W4384934897","https://openalex.org/W4385564176","https://openalex.org/W4387378658","https://openalex.org/W4388847467","https://openalex.org/W6739901393","https://openalex.org/W6907508007"],"related_works":["https://openalex.org/W2473932326","https://openalex.org/W2188270127","https://openalex.org/W2329742526","https://openalex.org/W2169790668","https://openalex.org/W2018182937","https://openalex.org/W2985048223","https://openalex.org/W2074785916","https://openalex.org/W2010808173","https://openalex.org/W1986249076","https://openalex.org/W2414745257"],"abstract_inverted_index":{"Neoantigens":[0],"are":[1],"promising":[2],"targets":[3],"for":[4],"immunotherapy":[5],"by":[6],"eliciting":[7],"immune":[8,166],"response":[9],"and":[10,19,39,51,58,114,149],"removing":[11],"cancer":[12],"cells":[13],"with":[14,54,74],"high":[15],"specificity,":[16],"low":[17],"toxicity":[18],"ease":[20],"of":[21,30,81,89,98,131,142,158,162,197,205],"personalization.":[22],"However,":[23],"identifying":[24],"effective":[25],"neoantigens":[26,148],"remains":[27],"difficult":[28],"because":[29],"the":[31,55,60,67,79,86,95,129,163,177,195,202],"complex":[32],"interactions":[33,100],"among":[34],"T":[35,107,152],"cell":[36,108],"receptors,":[37],"antigens":[38],"human":[40],"leucocyte":[41,110,173],"antigen":[42,111,174],"sequences.":[43,119],"In":[44,65,154,182],"this":[45,183],"study,":[46,184],"we":[47],"integrate":[48],"important":[49],"physical":[50],"biological":[52],"priors":[53],"Transformer":[56],"model":[57],"propose":[59],"physics-inspired":[61,186],"sliding":[62,187],"transformer":[63,188],"(PISTE).":[64],"PISTE,":[66],"conventional,":[68],"data-driven":[69],"attention":[70],"mechanism":[71],"is":[72,191],"replaced":[73],"physics-driven":[75],"dynamics":[76],"that":[77],"steers":[78],"positioning":[80,196],"amino":[82,198],"acid":[83,199],"residues":[84,200],"along":[85,201],"gradient":[87,203],"field":[88,204],"their":[90,206],"interactions.":[91],"This":[92],"allows":[93],"navigating":[94],"intricate":[96],"landscape":[97],"biosequence":[99],"intelligently,":[101],"leading":[102],"to":[103,117,146,179,193],"improved":[104],"accuracy":[105],"in":[106,128,139],"receptor\u2013antigen\u2013human":[109],"binding":[112,175,209],"prediction":[113,210],"robust":[115],"generalization":[116],"rare":[118],"Furthermore,":[120],"PISTE":[121,138],"effectively":[122],"recovers":[123],"residue-level":[124],"contact":[125],"relationships":[126],"even":[127],"absence":[130],"three-dimensional":[132],"structure":[133],"training":[134],"data.":[135],"We":[136],"applied":[137],"a":[140,155,185],"multitude":[141],"immunogenic":[143],"tumour":[144],"types":[145],"pinpoint":[147],"discern":[150],"neoantigen-reactive":[151],"cells.":[153],"prospective":[156],"study":[157],"prostate":[159],"cancer,":[160],"75%":[161],"patients":[164],"elicited":[165],"responses":[167],"through":[168],"PISTE-predicted":[169],"neoantigens.":[170],"Predicting":[171],"TCR\u2013antigen\u2013human":[172],"opens":[176],"door":[178],"neoantigen":[180],"identification.":[181],"(PISTE)":[189],"system":[190],"used":[192],"guide":[194],"interactions,":[207],"boosting":[208],"accuracy.":[211]},"counts_by_year":[{"year":2026,"cited_by_count":15},{"year":2025,"cited_by_count":22},{"year":2024,"cited_by_count":2}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
