{"id":"https://openalex.org/W7164354907","doi":"https://doi.org/10.1093/bib/bbag250","title":"CONTRA-IL6: an interpretable hybrid convolutional neural network and Transformer framework for accurate prediction of interleukin-6-inducing peptides using protein language models","display_name":"CONTRA-IL6: an interpretable hybrid convolutional neural network and Transformer framework for accurate prediction of interleukin-6-inducing peptides using protein language models","publication_year":2026,"publication_date":"2026-05-01","ids":{"openalex":"https://openalex.org/W7164354907","doi":"https://doi.org/10.1093/bib/bbag250","pmid":"https://pubmed.ncbi.nlm.nih.gov/42281397"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbag250","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag250","pdf_url":null,"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","license_id":"https://openalex.org/licenses/cc-by","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://doi.org/10.1093/bib/bbag250","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008749744","display_name":"Duong Thanh Tran","orcid":"https://orcid.org/0009-0003-5096-8167"},"institutions":[{"id":"https://openalex.org/I848706","display_name":"Sungkyunkwan University","ror":"https://ror.org/04q78tk20","country_code":"KR","type":"education","lineage":["https://openalex.org/I848706"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Duong Thanh Tran","raw_affiliation_strings":["Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,","institution_ids":["https://openalex.org/I848706"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091402542","display_name":"Nhat Truong Pham","orcid":"https://orcid.org/0000-0002-8086-6722"},"institutions":[{"id":"https://openalex.org/I848706","display_name":"Sungkyunkwan University","ror":"https://ror.org/04q78tk20","country_code":"KR","type":"education","lineage":["https://openalex.org/I848706"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Nhat Truong Pham","raw_affiliation_strings":["Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,","institution_ids":["https://openalex.org/I848706"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065292282","display_name":"Gwang Lee","orcid":"https://orcid.org/0000-0002-1299-9478"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Gwang Lee","raw_affiliation_strings":["Department of Molecular Science and Technology, Ajou University, Suwon 16499 ,","Department of Physiology, Ajou University School of Medicine, Suwon 16499 ,"],"raw_orcid":"https://orcid.org/0000-0002-1299-9478","affiliations":[{"raw_affiliation_string":"Department of Molecular Science and Technology, Ajou University, Suwon 16499 ,","institution_ids":["https://openalex.org/I57664883"]},{"raw_affiliation_string":"Department of Physiology, Ajou University School of Medicine, Suwon 16499 ,","institution_ids":["https://openalex.org/I57664883"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055306211","display_name":"Shaherin Basith","orcid":"https://orcid.org/0000-0002-2807-1885"},"institutions":[{"id":"https://openalex.org/I57664883","display_name":"Ajou University","ror":"https://ror.org/03tzb2h73","country_code":"KR","type":"education","lineage":["https://openalex.org/I57664883"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Shaherin Basith","raw_affiliation_strings":["Department of Physiology, Ajou University School of Medicine, Suwon 16499 ,"],"raw_orcid":"https://orcid.org/0000-0002-2807-1885","affiliations":[{"raw_affiliation_string":"Department of Physiology, Ajou University School of Medicine, Suwon 16499 ,","institution_ids":["https://openalex.org/I57664883"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040180866","display_name":"Balachandran Manavalan","orcid":"https://orcid.org/0000-0003-0697-9419"},"institutions":[{"id":"https://openalex.org/I848706","display_name":"Sungkyunkwan University","ror":"https://ror.org/04q78tk20","country_code":"KR","type":"education","lineage":["https://openalex.org/I848706"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Balachandran Manavalan","raw_affiliation_strings":["Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,"],"raw_orcid":"https://orcid.org/0000-0003-0697-9419","affiliations":[{"raw_affiliation_string":"Department of Integrative Biotechnology, College of Biotechnology and Bioengineering, Sungkyunkwan University , Suwon 16419, Gyeonggi-do ,","institution_ids":["https://openalex.org/I848706"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5040180866","https://openalex.org/A5055306211","https://openalex.org/A5065292282"],"corresponding_institution_ids":["https://openalex.org/I57664883","https://openalex.org/I848706"],"apc_list":{"value":3885,"currency":"USD","value_usd":3885},"apc_paid":{"value":3885,"currency":"USD","value_usd":3885},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.53288866,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"27","issue":"3","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":0.8870999813079834,"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":0.8870999813079834,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.06199999898672104,"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/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.014100000262260437,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"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/convolutional-neural-network","display_name":"Convolutional neural network","score":0.6323999762535095},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.6083999872207642},{"id":"https://openalex.org/keywords/transformer","display_name":"Transformer","score":0.4878999888896942},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.40639999508857727},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.3822000026702881},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.362199991941452},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.33309999108314514},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.328000009059906}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7487000226974487},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.6323999762535095},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6083999872207642},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5914000272750854},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.4878999888896942},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.40639999508857727},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4018000066280365},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.3822000026702881},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.362199991941452},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.33309999108314514},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.328000009059906},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.3249000012874603},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3122999966144562},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.30149999260902405},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2989000082015991},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.29109999537467957},{"id":"https://openalex.org/C83665646","wikidata":"https://www.wikidata.org/wiki/Q42139305","display_name":"Feature vector","level":2,"score":0.2879999876022339},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.27320000529289246},{"id":"https://openalex.org/C66153294","wikidata":"https://www.wikidata.org/wiki/Q899291","display_name":"CASP","level":4,"score":0.2565999925136566},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.2563000023365021},{"id":"https://openalex.org/C137293760","wikidata":"https://www.wikidata.org/wiki/Q3621696","display_name":"Language model","level":2,"score":0.25609999895095825},{"id":"https://openalex.org/C52622490","wikidata":"https://www.wikidata.org/wiki/Q1026626","display_name":"Feature extraction","level":2,"score":0.25}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000095763","descriptor_name":"Immunoinformatics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098415","descriptor_name":"Convolutional Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098415","descriptor_name":"Convolutional Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098415","descriptor_name":"Convolutional Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098415","descriptor_name":"Convolutional Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098415","descriptor_name":"Convolutional Neural Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000098437","descriptor_name":"Prediction Algorithms","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"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":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D015850","descriptor_name":"Interleukin-6","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015850","descriptor_name":"Interleukin-6","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015850","descriptor_name":"Interleukin-6","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015850","descriptor_name":"Interleukin-6","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D015850","descriptor_name":"Interleukin-6","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"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":"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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbag250","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag250","pdf_url":null,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:42281397","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42281397","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:13256231","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13256231/","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbag250","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbag250","pdf_url":null,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.42382383346557617,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G2412976441","display_name":null,"funder_award_id":"RS-2024-00416536","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G3189342016","display_name":null,"funder_award_id":"RS-2025-16072961","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G7658573321","display_name":null,"funder_award_id":"RS-2024-00344752","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"}],"funders":[{"id":"https://openalex.org/F4320311039","display_name":"Ministry of Higher Education and Scientific Research","ror":"https://ror.org/00kab6t91"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320328359","display_name":"Ministry of Science and ICT, South Korea","ror":"https://ror.org/01wpjm123"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W2035505806","https://openalex.org/W2086840459","https://openalex.org/W2096166085","https://openalex.org/W2097147259","https://openalex.org/W2110463517","https://openalex.org/W2111034338","https://openalex.org/W2148658155","https://openalex.org/W2156125289","https://openalex.org/W2471732223","https://openalex.org/W2493916176","https://openalex.org/W2626842659","https://openalex.org/W2893631054","https://openalex.org/W2898389621","https://openalex.org/W2995514860","https://openalex.org/W3001118548","https://openalex.org/W3030871984","https://openalex.org/W3092381885","https://openalex.org/W3100777112","https://openalex.org/W3112902030","https://openalex.org/W3146944767","https://openalex.org/W3157265962","https://openalex.org/W3159193120","https://openalex.org/W3177500196","https://openalex.org/W3197123494","https://openalex.org/W3203494009","https://openalex.org/W4255447217","https://openalex.org/W4327550249","https://openalex.org/W4380792989","https://openalex.org/W4395084238","https://openalex.org/W4406242984","https://openalex.org/W4407753296","https://openalex.org/W4412643919"],"related_works":[],"abstract_inverted_index":{"Interleukin-6":[0],"(IL-6)":[1],"is":[2,242],"a":[3,90,230],"key":[4,30],"immunomodulatory":[5],"cytokine":[6,20],"implicated":[7],"in":[8,153,157,201],"diverse":[9],"physiological":[10],"processes":[11],"and":[12,19,36,43,55,75,99,141,144,155,161,170,210,222,233],"pathological":[13],"conditions,":[14],"including":[15],"autoimmune":[16],"diseases,":[17],"cancers,":[18],"storms.":[21],"Immunogenic":[22],"peptides":[23,52],"capable":[24],"of":[25,32,50,220],"inducing":[26],"IL-6":[27],"expression":[28],"are":[29],"modulators":[31],"host":[33],"immune":[34],"responses":[35],"represent":[37],"promising":[38],"candidates":[39],"for":[40,57,80,236],"therapeutic":[41],"design":[42],"epitope-based":[44],"vaccine":[45],"development.":[46],"However,":[47],"experimental":[48],"identification":[49],"IL-6-inducing":[51,112],"remains":[53],"laborious":[54],"unsuitable":[56],"large-scale":[58],"screening.":[59],"Although":[60],"existing":[61,149],"computational":[62],"approaches":[63],"show":[64],"promise,":[65],"many":[66],"often":[67],"struggle":[68],"to":[69,110,188,225,247],"capture":[70],"both":[71],"global":[72,221],"contextual":[73],"semantics":[74],"local":[76,223],"motif-level":[77],"features":[78],"essential":[79],"peptide":[81],"immunogenicity.":[82],"To":[83],"address":[84],"these":[85,196],"limitations,":[86],"we":[87,193],"present":[88],"CONTRA-IL6,":[89],"novel":[91],"deep":[92],"learning":[93],"framework":[94],"that":[95,121],"integrates":[96],"Transformer":[97],"fusion":[98],"convolutional":[100],"localization":[101],"modules":[102,224],"with":[103],"stacked":[104],"pretrained":[105],"protein":[106],"language":[107],"model":[108,226],"embeddings":[109],"predict":[111],"peptides.":[113],"Comprehensive":[114],"benchmarking":[115],"on":[116],"an":[117],"independent":[118],"dataset":[119],"demonstrates":[120],"CONTRA-IL6":[122,228],"achieves":[123,133],"superior":[124],"predictive":[125],"performance":[126],"over":[127,146],"six":[128],"state-of-the-art":[129],"predictors.":[130],"Notably,":[131],"it":[132],"the":[134,147,207,217],"highest":[135],"Matthews":[136],"correlation":[137],"coefficient":[138],"(MCC,":[139],"0.504)":[140],"F1":[142],"(0.549)":[143],"improves":[145],"best-performing":[148],"method":[150],"by":[151,199],"3.2%":[152],"MCC":[154],"4.3%":[156],"F1,":[158],"demonstrating":[159],"balanced":[160],"robust":[162],"performance.":[163,227],"Feature":[164],"space":[165],"visualizations":[166],"(uniform":[167],"manifold":[168],"approximation":[169],"projection,":[171],"kernel":[172],"density":[173],"estimation)":[174],"showed":[175],"clear":[176],"class":[177,182],"separation,":[178],"while":[179],"1D":[180],"gradient-weighted":[181],"activation":[183],"mapping++":[184],"highlighted":[185],"strong":[186],"attention":[187],"specific":[189],"C-terminal":[190],"regions.":[191],"Crucially,":[192],"moved":[194],"beyond":[195],"attribution":[197],"methods":[198],"employing":[200],"silico":[202],"mutagenesis,":[203],"which":[204],"causally":[205],"confirmed":[206,216],"functional":[208],"importance":[209],"physicochemical":[211],"constraints.":[212],"Ablation":[213],"studies":[214],"further":[215],"synergistic":[218],"contribution":[219],"offers":[229],"robust,":[231],"scalable,":[232],"interpretable":[234],"solution":[235],"immunoinformatics":[237],"research.":[238],"The":[239],"standalone":[240],"package":[241],"freely":[243],"available":[244],"at":[245],"https://pypi.org/project/contra-il6/":[246],"facilitate":[248],"broader":[249],"community":[250],"use.":[251]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2026-06-12T00:00:00"}
