{"id":"https://openalex.org/W4412132070","doi":"https://doi.org/10.1093/bib/bbaf314","title":"Deciphering the MHC immunopeptidome of human cancers with Ligand.MHC atlas","display_name":"Deciphering the MHC immunopeptidome of human cancers with Ligand.MHC atlas","publication_year":2025,"publication_date":"2025-07-01","ids":{"openalex":"https://openalex.org/W4412132070","doi":"https://doi.org/10.1093/bib/bbaf314","pmid":"https://pubmed.ncbi.nlm.nih.gov/40632497"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf314","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf314/63711467/bbaf314.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/bbaf314/63711467/bbaf314.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110488332","display_name":"Zhiguang Ran","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210153856","display_name":"Second Xiangya Hospital of Central South University","ror":"https://ror.org/053v2gh09","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153856"]},{"id":"https://openalex.org/I4210159865","display_name":"Xiangya Hospital Central South University","ror":"https://ror.org/05c1yfj14","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159865"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhi Ran","raw_affiliation_strings":["Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","Institute of Molecular Precision Medicine, Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","School of Life Science, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":"https://orcid.org/0009-0008-3840-797X","affiliations":[{"raw_affiliation_string":"Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210153856"]},{"raw_affiliation_string":"Institute of Molecular Precision Medicine, Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210159865"]},{"raw_affiliation_string":"School of Life Science, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078340822","display_name":"Min Mu","orcid":"https://orcid.org/0000-0002-0833-0683"},"institutions":[{"id":"https://openalex.org/I4210098361","display_name":"First Affiliated Hospital of Guangzhou Medical University","ror":"https://ror.org/00z0j0d77","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210098361"]},{"id":"https://openalex.org/I74525822","display_name":"Hubei University of Technology","ror":"https://ror.org/02d3fj342","country_code":"CN","type":"education","lineage":["https://openalex.org/I74525822"]},{"id":"https://openalex.org/I92039509","display_name":"Guangzhou Medical University","ror":"https://ror.org/00zat6v61","country_code":"CN","type":"education","lineage":["https://openalex.org/I92039509"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Meilin Mu","raw_affiliation_strings":["Guangzhou National Laboratory , Guangzhou 510005 ,","Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Center for Artificial Biology, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology , Wuhan 430074, Hubei ,","State Key Laboratory of Respiratory Disease, The First Affiliated Hospital of Guangzhou Medical University , Guangzhou 510120, Guangdong ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangzhou National Laboratory , Guangzhou 510005 ,","institution_ids":[]},{"raw_affiliation_string":"Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Center for Artificial Biology, Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology , Wuhan 430074, Hubei ,","institution_ids":["https://openalex.org/I74525822"]},{"raw_affiliation_string":"State Key Laboratory of Respiratory Disease, The First Affiliated Hospital of Guangzhou Medical University , Guangzhou 510120, Guangdong ,","institution_ids":["https://openalex.org/I4210098361","https://openalex.org/I92039509"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008488027","display_name":"Shaofeng Lin","orcid":"https://orcid.org/0000-0002-1177-5480"},"institutions":[{"id":"https://openalex.org/I129708740","display_name":"Fujian Medical University","ror":"https://ror.org/050s6ns64","country_code":"CN","type":"education","lineage":["https://openalex.org/I129708740"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shaofeng Lin","raw_affiliation_strings":["Key Laboratory of Ministry of Education of Gastrointestinal Cancer, School of Basic Medical Science, Fujian Medical University , Fuzhou 350004 ,"],"raw_orcid":"https://orcid.org/0000-0002-1177-5480","affiliations":[{"raw_affiliation_string":"Key Laboratory of Ministry of Education of Gastrointestinal Cancer, School of Basic Medical Science, Fujian Medical University , Fuzhou 350004 ,","institution_ids":["https://openalex.org/I129708740"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115602791","display_name":"Tao Wang","orcid":"https://orcid.org/0000-0002-2597-1247"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210153856","display_name":"Second Xiangya Hospital of Central South University","ror":"https://ror.org/053v2gh09","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153856"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tao Wang","raw_affiliation_strings":["Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210153856"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112956927","display_name":"Jing Zeng","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210153856","display_name":"Second Xiangya Hospital of Central South University","ror":"https://ror.org/053v2gh09","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153856"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jing Zeng","raw_affiliation_strings":["Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210153856"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Lan Kuang","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210153856","display_name":"Second Xiangya Hospital of Central South University","ror":"https://ror.org/053v2gh09","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153856"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lan Kuang","raw_affiliation_strings":["Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210153856"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090892714","display_name":"Kunqi Chen","orcid":"https://orcid.org/0000-0002-6025-8957"},"institutions":[{"id":"https://openalex.org/I129708740","display_name":"Fujian Medical University","ror":"https://ror.org/050s6ns64","country_code":"CN","type":"education","lineage":["https://openalex.org/I129708740"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kunqi Chen","raw_affiliation_strings":["Key Laboratory of Ministry of Education of Gastrointestinal Cancer, School of Basic Medical Science, Fujian Medical University , Fuzhou 350004 ,"],"raw_orcid":"https://orcid.org/0000-0002-6025-8957","affiliations":[{"raw_affiliation_string":"Key Laboratory of Ministry of Education of Gastrointestinal Cancer, School of Basic Medical Science, Fujian Medical University , Fuzhou 350004 ,","institution_ids":["https://openalex.org/I129708740"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008597480","display_name":"Shengbao Suo","orcid":"https://orcid.org/0009-0008-8943-2956"},"institutions":[{"id":"https://openalex.org/I4210098361","display_name":"First Affiliated Hospital of Guangzhou Medical University","ror":"https://ror.org/00z0j0d77","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210098361"]},{"id":"https://openalex.org/I92039509","display_name":"Guangzhou Medical University","ror":"https://ror.org/00zat6v61","country_code":"CN","type":"education","lineage":["https://openalex.org/I92039509"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shengbao Suo","raw_affiliation_strings":["Guangzhou National Laboratory , Guangzhou 510005 ,","State Key Laboratory of Respiratory Disease, The First Affiliated Hospital of Guangzhou Medical University , Guangzhou 510120, Guangdong ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Guangzhou National Laboratory , Guangzhou 510005 ,","institution_ids":[]},{"raw_affiliation_string":"State Key Laboratory of Respiratory Disease, The First Affiliated Hospital of Guangzhou Medical University , Guangzhou 510120, Guangdong ,","institution_ids":["https://openalex.org/I4210098361","https://openalex.org/I92039509"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086364138","display_name":"Kai Yuan","orcid":"https://orcid.org/0000-0001-7002-5703"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210159865","display_name":"Xiangya Hospital Central South University","ror":"https://ror.org/05c1yfj14","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210159865"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kai Yuan","raw_affiliation_strings":["Institute of Molecular Precision Medicine, Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","School of Life Science, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":"https://orcid.org/0000-0001-7002-5703","affiliations":[{"raw_affiliation_string":"Institute of Molecular Precision Medicine, Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210159865"]},{"raw_affiliation_string":"School of Life Science, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5008581924","display_name":"Haodong Xu","orcid":"https://orcid.org/0000-0003-2086-3893"},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]},{"id":"https://openalex.org/I4210153856","display_name":"Second Xiangya Hospital of Central South University","ror":"https://ror.org/053v2gh09","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I4210153856"]},{"id":"https://openalex.org/I4210159031","display_name":"The University of Texas Health Science Center","ror":"https://ror.org/05cwbxa29","country_code":"US","type":"education","lineage":["https://openalex.org/I4210159031"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Haodong Xu","raw_affiliation_strings":["Center for Precision Health, School of Biomedical Informatics, UTHealth , Houston, TX 77030 ,","Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,"],"raw_orcid":"https://orcid.org/0000-0003-2086-3893","affiliations":[{"raw_affiliation_string":"Center for Precision Health, School of Biomedical Informatics, UTHealth , Houston, TX 77030 ,","institution_ids":["https://openalex.org/I4210159031"]},{"raw_affiliation_string":"Department of Orthopaedics, The Second Xiangya Hospital, Central South University , Changsha, Hunan 410011 ,","institution_ids":["https://openalex.org/I139660479","https://openalex.org/I4210153856"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"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":1.2715,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.79059843,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"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":0.9998999834060669,"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":0.9998999834060669,"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/T12505","display_name":"Peptidase Inhibition and Analysis","score":0.9987000226974487,"subfield":{"id":"https://openalex.org/subfields/2730","display_name":"Oncology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10580","display_name":"Immunotherapy and Immune Responses","score":0.9986000061035156,"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/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.7211443185806274},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.7060992121696472},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6053341031074524},{"id":"https://openalex.org/keywords/cancer-immunotherapy","display_name":"Cancer immunotherapy","score":0.5394030809402466},{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.5377734899520874},{"id":"https://openalex.org/keywords/mhc-class-i","display_name":"MHC class I","score":0.5054178237915039},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5006351470947266},{"id":"https://openalex.org/keywords/immunotherapy","display_name":"Immunotherapy","score":0.43236345052719116},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.3878594636917114},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.3244151473045349},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24538809061050415}],"concepts":[{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.7211443185806274},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.7060992121696472},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6053341031074524},{"id":"https://openalex.org/C2780674031","wikidata":"https://www.wikidata.org/wiki/Q2012719","display_name":"Cancer immunotherapy","level":4,"score":0.5394030809402466},{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.5377734899520874},{"id":"https://openalex.org/C170627219","wikidata":"https://www.wikidata.org/wiki/Q13218497","display_name":"MHC class I","level":4,"score":0.5054178237915039},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5006351470947266},{"id":"https://openalex.org/C2777701055","wikidata":"https://www.wikidata.org/wiki/Q1427096","display_name":"Immunotherapy","level":3,"score":0.43236345052719116},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.3878594636917114},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.3244151473045349},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24538809061050415}],"mesh":[{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","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":false},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D015395","descriptor_name":"Histocompatibility Antigens Class I","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf314","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf314/63711467/bbaf314.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:40632497","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40632497","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:12239622","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12239622","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/bbaf314","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf314","pdf_url":"https://academic.oup.com/bib/article-pdf/26/4/bbaf314/63711467/bbaf314.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/G3770241343","display_name":null,"funder_award_id":"32370972","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G534215767","display_name":null,"funder_award_id":"2023A1515011783","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G6044273487","display_name":null,"funder_award_id":"32300520","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G747073647","display_name":null,"funder_award_id":"2024B1515020052","funder_id":"https://openalex.org/F4320337111","funder_display_name":"Basic and Applied Basic Research Foundation of Guangdong Province"},{"id":"https://openalex.org/G7698048212","display_name":null,"funder_award_id":"32370821","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8469188154","display_name":null,"funder_award_id":"32300528","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/F4320337111","display_name":"Basic and Applied Basic Research Foundation of Guangdong Province","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4412132070.pdf","grobid_xml":"https://content.openalex.org/works/W4412132070.grobid-xml"},"referenced_works_count":62,"referenced_works":["https://openalex.org/W2011458181","https://openalex.org/W2059385530","https://openalex.org/W2059651000","https://openalex.org/W2063841466","https://openalex.org/W2084323507","https://openalex.org/W2096057003","https://openalex.org/W2156827437","https://openalex.org/W2168158047","https://openalex.org/W2589139221","https://openalex.org/W2625609557","https://openalex.org/W2793859699","https://openalex.org/W2894727674","https://openalex.org/W2907045541","https://openalex.org/W2910730299","https://openalex.org/W2945606195","https://openalex.org/W2971621113","https://openalex.org/W2994622524","https://openalex.org/W2995494055","https://openalex.org/W3009535618","https://openalex.org/W3020766569","https://openalex.org/W3024570138","https://openalex.org/W3026964763","https://openalex.org/W3042910002","https://openalex.org/W3043293280","https://openalex.org/W3045946240","https://openalex.org/W3046115489","https://openalex.org/W3084609702","https://openalex.org/W3085474169","https://openalex.org/W3088579978","https://openalex.org/W3128131226","https://openalex.org/W3134224036","https://openalex.org/W3134443156","https://openalex.org/W3156888771","https://openalex.org/W3157435453","https://openalex.org/W3178729426","https://openalex.org/W3189965002","https://openalex.org/W3197265554","https://openalex.org/W3199626861","https://openalex.org/W3203575974","https://openalex.org/W3208691473","https://openalex.org/W4210370153","https://openalex.org/W4281670596","https://openalex.org/W4281893146","https://openalex.org/W4282975189","https://openalex.org/W4284973298","https://openalex.org/W4308637256","https://openalex.org/W4313492115","https://openalex.org/W4316494517","https://openalex.org/W4328117632","https://openalex.org/W4362633841","https://openalex.org/W4365446410","https://openalex.org/W4367624001","https://openalex.org/W4376133743","https://openalex.org/W4388048581","https://openalex.org/W4388994149","https://openalex.org/W4390937479","https://openalex.org/W4391067309","https://openalex.org/W4391103249","https://openalex.org/W4399578568","https://openalex.org/W4399917466","https://openalex.org/W4400553079","https://openalex.org/W4406015449"],"related_works":["https://openalex.org/W203802859","https://openalex.org/W2381567441","https://openalex.org/W1840653008","https://openalex.org/W2977793531","https://openalex.org/W2023967363","https://openalex.org/W1939527068","https://openalex.org/W2126139339","https://openalex.org/W2168688111","https://openalex.org/W2070684866","https://openalex.org/W4281625971"],"abstract_inverted_index":{"A":[0],"fundamental":[1],"principle":[2],"of":[3,11,44,83,109,169,247],"immunotherapy":[4],"is":[5,254],"that":[6,140],"T":[7,62],"cells":[8],"are":[9],"capable":[10],"detecting":[12],"tumor":[13,30,38,60],"epitopes":[14,31],"presented":[15,49],"on":[16,55],"cancer":[17,151,248],"cell":[18],"surfaces.":[19],"Immunopeptidomic":[20],"strategies":[21],"empowered":[22],"by":[23],"liquid":[24],"chromatography-tandem":[25],"mass":[26],"spectrometry":[27],"have":[28],"transformed":[29],"identification":[32,69],"and":[33,61,70,81,104,121,135,156,174,214,217,250],"provided":[34],"novel":[35,208],"insights":[36],"into":[37,178,239],"immunology.":[39],"It":[40,242],"enables":[41],"in-depth":[42],"profiling":[43],"major":[45,191],"histocompatibility":[46],"complex":[47],"(MHC)":[48],"ligands,":[50],"thereby":[51,147],"offering":[52,236],"valuable":[53],"perspectives":[54],"the":[56,150,166,204,245],"molecular":[57],"dialog":[58],"among":[59],"cells.":[63],"Here,":[64],"we":[65,94,129,154],"developed":[66],"an":[67,78,233],"immune-ligand":[68],"analysis":[71,213],"pipeline":[72],"from":[73,101],"large-scale":[74],"immunopeptidomics":[75,212],"data.":[76],"Through":[77],"extensive":[79],"collection":[80],"processing":[82],"5821":[84],"immunopeptidomic":[85],"samples,":[86],"which":[87],"amounted":[88],"to":[89,123,143,185],"305.7":[90],"million":[91],"MS2":[92],"spectra,":[93],"identified":[95,155],"24":[96],"380":[97],"595":[98],"peptide-spectrum":[99],"matches":[100],"these":[102],"samples":[103],"further":[105],"detected":[106,130],"a":[107,181,219,224],"total":[108],"1":[110],"017":[111],"731":[112],"unique":[113],"MHC":[114],"immune":[115],"ligands.":[116],"These":[117],"ligands":[118,173,188],"were":[119,176],"deconvolved":[120],"classified":[122],"specific":[124],"HLA":[125,145,226],"alleles.":[126],"In":[127],"total,":[128],"582":[131],"852":[132],"HLA-I":[133],"peptides":[134,139],"434":[136],"879":[137],"HLA-II":[138],"can":[141],"bind":[142],"292":[144],"alleles,":[146],"greatly":[148],"expanding":[149],"immunopeptidome.":[152],"Additionally,":[153],"annotated":[157],"372":[158],"720":[159],"tumor-associated":[160],"post-translational":[161],"modification":[162],"(PTM)":[163],"peptides,":[164],"revealing":[165],"comprehensive":[167,182,225],"landscape":[168],"PTM":[170],"antigens.":[171],"All":[172],"annotations":[175],"aggregated":[177],"Ligand.MHC":[179,229,252],"Atlas,":[180],"repository":[183],"dedicated":[184],"tumor-derived":[186],"HLA-presented":[187],"across":[189],"26":[190],"human":[192],"cancers":[193],"(54":[194],"subtypes).":[195],"Overall,":[196],"our":[197],"study":[198],"uniquely":[199],"integrates":[200],"batch-effect":[201],"correction,":[202],"leverages":[203],"optimized":[205],"software":[206],"with":[207,223],"deconvolution":[209],"approach":[210],"for":[211],"ligand":[215,227],"identification,":[216],"provides":[218],"public":[220],"web":[221],"portal":[222],"repository.":[228],"Atlas":[230,253],"functions":[231],"as":[232],"invaluable":[234],"resource,":[235],"crucial":[237],"understandings":[238],"immunology":[240],"investigations.":[241],"will":[243],"accelerate":[244],"advancement":[246],"vaccines":[249],"immunotherapies.":[251],"available":[255],"at":[256],"http://modinfor.com/Ligand.MHC-Atlas/.":[257]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
