{"id":"https://openalex.org/W4400655183","doi":"https://doi.org/10.1093/bib/bbae343","title":"GTE: a graph learning framework for prediction of T-cell receptors and epitopes binding specificity","display_name":"GTE: a graph learning framework for prediction of T-cell receptors and epitopes binding specificity","publication_year":2024,"publication_date":"2024-05-23","ids":{"openalex":"https://openalex.org/W4400655183","doi":"https://doi.org/10.1093/bib/bbae343","pmid":"https://pubmed.ncbi.nlm.nih.gov/39007599"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae343","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae343","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae343/58544706/bbae343.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/25/4/bbae343/58544706/bbae343.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5011283392","display_name":"Feng Jiang","orcid":"https://orcid.org/0000-0002-8953-6498"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Feng Jiang","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008281887","display_name":"Yuzhi Guo","orcid":"https://orcid.org/0000-0002-8993-1818"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuzhi Guo","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078917190","display_name":"Hehuan Ma","orcid":"https://orcid.org/0000-0002-5971-0053"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hehuan Ma","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030632857","display_name":"Saiyang Na","orcid":"https://orcid.org/0000-0002-2662-5063"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Saiyang Na","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073111039","display_name":"Wenliang Zhong","orcid":"https://orcid.org/0000-0001-7095-4385"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wenliang Zhong","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017276343","display_name":"Yi Han","orcid":"https://orcid.org/0000-0002-2835-9280"},"institutions":[{"id":"https://openalex.org/I867280407","display_name":"The University of Texas Southwestern Medical Center","ror":"https://ror.org/05byvp690","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I867280407"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yi Han","raw_affiliation_strings":["University of Texas Southwestern Medical Center Public Health, , 5323 Harry Hines Blvd, TX 75390, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas Southwestern Medical Center Public Health, , 5323 Harry Hines Blvd, TX 75390, United States","institution_ids":["https://openalex.org/I867280407"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108861053","display_name":"Tao Wang","orcid":"https://orcid.org/0000-0002-0001-3261"},"institutions":[{"id":"https://openalex.org/I867280407","display_name":"The University of Texas Southwestern Medical Center","ror":"https://ror.org/05byvp690","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I867280407"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tao Wang","raw_affiliation_strings":["University of Texas Southwestern Medical Center Public Health, , 5323 Harry Hines Blvd, TX 75390, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas Southwestern Medical Center Public Health, , 5323 Harry Hines Blvd, TX 75390, United States","institution_ids":["https://openalex.org/I867280407"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068865316","display_name":"Junzhou Huang","orcid":"https://orcid.org/0000-0002-9548-1227"},"institutions":[{"id":"https://openalex.org/I189196454","display_name":"The University of Texas at Arlington","ror":"https://ror.org/019kgqr73","country_code":"US","type":"education","lineage":["https://openalex.org/I189196454"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Junzhou Huang","raw_affiliation_strings":["University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Texas at Arlington Department of Computer Science and Engineering, , 701 S. Nedderman Drive, TX 76019, United States","institution_ids":["https://openalex.org/I189196454"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5068865316"],"corresponding_institution_ids":["https://openalex.org/I189196454"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":2.7992,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.91130616,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"25","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":0.9995999932289124,"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":0.9995999932289124,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11440","display_name":"Click Chemistry and Applications","score":0.9649999737739563,"subfield":{"id":"https://openalex.org/subfields/1605","display_name":"Organic Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.8768753409385681},{"id":"https://openalex.org/keywords/t-cell-receptor","display_name":"T-cell receptor","score":0.6984059810638428},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6443260908126831},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6275953054428101},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.5737770795822144},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.5196962952613831},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.36914652585983276},{"id":"https://openalex.org/keywords/t-cell","display_name":"T cell","score":0.35100144147872925},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2804493308067322},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27749401330947876},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.25102663040161133},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.20103394985198975},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.15019196271896362}],"concepts":[{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.8768753409385681},{"id":"https://openalex.org/C19317047","wikidata":"https://www.wikidata.org/wiki/Q412037","display_name":"T-cell receptor","level":4,"score":0.6984059810638428},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6443260908126831},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6275953054428101},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.5737770795822144},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.5196962952613831},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.36914652585983276},{"id":"https://openalex.org/C2776090121","wikidata":"https://www.wikidata.org/wiki/Q193529","display_name":"T cell","level":3,"score":0.35100144147872925},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2804493308067322},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27749401330947876},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.25102663040161133},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.20103394985198975},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.15019196271896362}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018984","descriptor_name":"Epitopes, T-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbae343","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae343","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae343/58544706/bbae343.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:39007599","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39007599","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:11247411","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11247411","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11247411/pdf/bbae343.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:digitalcommons.library.tmc.edu:uthgsbs_docs-7571","is_oa":false,"landing_page_url":"https://digitalcommons.library.tmc.edu/uthgsbs_docs/6738","pdf_url":null,"source":{"id":"https://openalex.org/S4377196655","display_name":"Digital Commons-TMC (Texas Medical Center)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1337852284","host_organization_name":"Texas Medical Center","host_organization_lineage":["https://openalex.org/I1337852284"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty, Staff and Student Publications","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae343","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae343","pdf_url":"https://academic.oup.com/bib/article-pdf/25/4/bbae343/58544706/bbae343.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":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.49000000953674316},{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G3606637089","display_name":null,"funder_award_id":"CCF-2400785","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4084111234","display_name":null,"funder_award_id":"R01CA258584","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4205436379","display_name":"Developing knowledge guided deep learning models to predict the binding between T cell receptors and neoantigens for facilitating TCR-T therapies","funder_award_id":"RP230363","funder_id":"https://openalex.org/F4320308129","funder_display_name":"Cancer Prevention and Research Institute of Texas"},{"id":"https://openalex.org/G4321345054","display_name":"EAGER: Integrating Multi-Omics Biological Networks and Ontologies for lncRNA Function Annotation using Deep Learning","funder_award_id":"2400785","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G5458467565","display_name":"EAGER: Integrating Pathological Image and Biomedical Text Data for Clinical Outcome Prediction","funder_award_id":"2412195","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7189313086","display_name":null,"funder_award_id":"R01CA258584/TW","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7964820287","display_name":null,"funder_award_id":"RP230363/TW","funder_id":"https://openalex.org/F4320308129","funder_display_name":"Cancer Prevention and Research Institute of Texas"},{"id":"https://openalex.org/G8328936992","display_name":null,"funder_award_id":"IIS-2412195","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320308129","display_name":"Cancer Prevention and Research Institute of Texas","ror":"https://ror.org/0003xa228"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4400655183.pdf"},"referenced_works_count":56,"referenced_works":["https://openalex.org/W1992208280","https://openalex.org/W1995875735","https://openalex.org/W2011458181","https://openalex.org/W2052173279","https://openalex.org/W2072784497","https://openalex.org/W2087560337","https://openalex.org/W2106612397","https://openalex.org/W2117115931","https://openalex.org/W2156737316","https://openalex.org/W2163660115","https://openalex.org/W2165160727","https://openalex.org/W2607237575","https://openalex.org/W2613978126","https://openalex.org/W2670890989","https://openalex.org/W2671261300","https://openalex.org/W2738888953","https://openalex.org/W2752126733","https://openalex.org/W2894849296","https://openalex.org/W2898389621","https://openalex.org/W2899327929","https://openalex.org/W2906243310","https://openalex.org/W2911644242","https://openalex.org/W2963647337","https://openalex.org/W2965921152","https://openalex.org/W2968803773","https://openalex.org/W2973114758","https://openalex.org/W2990308980","https://openalex.org/W3019905301","https://openalex.org/W3036326371","https://openalex.org/W3040528450","https://openalex.org/W3041133507","https://openalex.org/W3080758869","https://openalex.org/W3120050808","https://openalex.org/W3135351475","https://openalex.org/W3138156743","https://openalex.org/W3177828909","https://openalex.org/W3196626346","https://openalex.org/W3198942356","https://openalex.org/W3202105508","https://openalex.org/W3217516687","https://openalex.org/W4210313485","https://openalex.org/W4220824576","https://openalex.org/W4288421316","https://openalex.org/W4288421327","https://openalex.org/W4294558607","https://openalex.org/W4297789998","https://openalex.org/W4319461881","https://openalex.org/W4321851522","https://openalex.org/W4323974789","https://openalex.org/W4360999048","https://openalex.org/W4380882762","https://openalex.org/W4403864679","https://openalex.org/W6738964360","https://openalex.org/W6755184371","https://openalex.org/W6800931976","https://openalex.org/W6802033083"],"related_works":["https://openalex.org/W2011835836","https://openalex.org/W2089872551","https://openalex.org/W1973836350","https://openalex.org/W2038509173","https://openalex.org/W2136036540","https://openalex.org/W2075125040","https://openalex.org/W2113488569","https://openalex.org/W3032468696","https://openalex.org/W2176905394","https://openalex.org/W2059333433"],"abstract_inverted_index":{"The":[0,156],"interaction":[1,55],"between":[2,79],"T-cell":[3],"receptors":[4],"(TCRs)":[5],"and":[6,36,39,81,159],"peptides":[7],"(epitopes)":[8],"presented":[9],"by":[10,95],"major":[11],"histocompatibility":[12],"complex":[13,153],"molecules":[14],"(MHC)":[15],"is":[16,27],"fundamental":[17],"to":[18,74,111,122,134],"the":[19,31,49,76,86,93,106,117,123,136,148],"immune":[20],"response.":[21],"Accurate":[22],"prediction":[23],"of":[24,33,53,88,138,150],"TCR-epitope":[25,54,108,145],"interactions":[26],"crucial":[28],"for":[29],"advancing":[30],"understanding":[32],"various":[34],"diseases":[35],"their":[37],"prevention":[38],"treatment.":[40],"Existing":[41],"methods":[42],"primarily":[43],"rely":[44],"on":[45,71,130],"sequence-based":[46],"approaches,":[47],"overlooking":[48],"inherent":[50],"topology":[51],"structure":[52,78],"networks.":[56,155],"In":[57],"this":[58],"study,":[59],"we":[60,84,115],"present":[61],"$GTE$,":[62],"a":[63,97],"novel":[64],"heterogeneous":[65],"Graph":[66],"neural":[67],"network":[68],"model":[69,103],"based":[70],"inductive":[72],"learning":[73,104],"capture":[75],"topological":[77,141],"TCRs":[80],"Epitopes.":[82],"Furthermore,":[83],"address":[85],"challenge":[87],"constructing":[89],"negative":[90],"samples":[91],"within":[92],"graph":[94,124],"proposing":[96],"dynamic":[98],"edge":[99],"update":[100],"strategy,":[101],"enhancing":[102],"with":[105],"nonbinding":[107],"pairs.":[109],"Additionally,":[110],"overcome":[112],"data":[113,160],"imbalance,":[114],"adapt":[116],"Deep":[118],"AUC":[119],"Maximization":[120],"strategy":[121],"domain.":[125],"Extensive":[126],"experiments":[127],"are":[128,161],"conducted":[129],"four":[131],"public":[132],"datasets":[133],"demonstrate":[135],"superiority":[137],"exploring":[139],"underlying":[140],"structures":[142],"in":[143],"predicting":[144],"interactions,":[146],"illustrating":[147],"benefits":[149],"delving":[151],"into":[152],"molecular":[154],"implementation":[157],"code":[158],"available":[162],"at":[163],"https://github.com/uta-smile/GTE.":[164]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":12}],"updated_date":"2026-07-13T07:31:44.756512","created_date":"2025-10-10T00:00:00"}