{"id":"https://openalex.org/W4392886136","doi":"https://doi.org/10.1093/bib/bbae092","title":"The rise of taxon-specific epitope predictors","display_name":"The rise of taxon-specific epitope predictors","publication_year":2024,"publication_date":"2024-01-22","ids":{"openalex":"https://openalex.org/W4392886136","doi":"https://doi.org/10.1093/bib/bbae092","pmid":"https://pubmed.ncbi.nlm.nih.gov/38493292"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae092","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbae092/56993007/bbae092.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/25/2/bbae092/56993007/bbae092.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000238517","display_name":"Felipe Campelo","orcid":"https://orcid.org/0000-0001-8432-4325"},"institutions":[{"id":"https://openalex.org/I169199633","display_name":"Aston University","ror":"https://ror.org/05j0ve876","country_code":"GB","type":"education","lineage":["https://openalex.org/I169199633"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Felipe Campelo","raw_affiliation_strings":["Aston University Aston Centre for Artificial Intelligence Research and Application, , Aston Triangle, B4 7ET, Birmingham, UK"],"raw_orcid":"https://orcid.org/0000-0001-8432-4325","affiliations":[{"raw_affiliation_string":"Aston University Aston Centre for Artificial Intelligence Research and Application, , Aston Triangle, B4 7ET, Birmingham, UK","institution_ids":["https://openalex.org/I169199633"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063430399","display_name":"Francisco Pereira Lobo","orcid":"https://orcid.org/0000-0002-9671-9313"},"institutions":[{"id":"https://openalex.org/I110200422","display_name":"Universidade Federal de Minas Gerais","ror":"https://ror.org/0176yjw32","country_code":"BR","type":"education","lineage":["https://openalex.org/I110200422"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Francisco P Lobo","raw_affiliation_strings":["Universidade Federal de Minas Gerais Department of Genetics, Ecology and Evolution, , Av. Antonio Carlos 6627, 31270-901, Belo Horizonte, MG, Brazil"],"raw_orcid":"https://orcid.org/0000-0002-9671-9313","affiliations":[{"raw_affiliation_string":"Universidade Federal de Minas Gerais Department of Genetics, Ecology and Evolution, , Av. Antonio Carlos 6627, 31270-901, Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I110200422"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5000238517"],"corresponding_institution_ids":["https://openalex.org/I169199633"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.5598,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.6374598,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":96},"biblio":{"volume":"25","issue":"2","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/T11688","display_name":"Microbial infections and disease research","score":0.9811999797821045,"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"}},{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","score":0.9753000140190125,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/taxon","display_name":"Taxon","score":0.8198610544204712},{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.8178837895393372},{"id":"https://openalex.org/keywords/generalist-and-specialist-species","display_name":"Generalist and specialist species","score":0.663955569267273},{"id":"https://openalex.org/keywords/perspective","display_name":"Perspective (graphical)","score":0.6202784180641174},{"id":"https://openalex.org/keywords/a-priori-and-a-posteriori","display_name":"A priori and a posteriori","score":0.5089523792266846},{"id":"https://openalex.org/keywords/range","display_name":"Range (aeronautics)","score":0.47878989577293396},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4753541648387909},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4460406005382538},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4418635070323944},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.375448614358902},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.37161731719970703},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.16609907150268555},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.15442901849746704},{"id":"https://openalex.org/keywords/epistemology","display_name":"Epistemology","score":0.11310815811157227}],"concepts":[{"id":"https://openalex.org/C71640776","wikidata":"https://www.wikidata.org/wiki/Q16521","display_name":"Taxon","level":2,"score":0.8198610544204712},{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.8178837895393372},{"id":"https://openalex.org/C45371612","wikidata":"https://www.wikidata.org/wiki/Q3058587","display_name":"Generalist and specialist species","level":3,"score":0.663955569267273},{"id":"https://openalex.org/C12713177","wikidata":"https://www.wikidata.org/wiki/Q1900281","display_name":"Perspective (graphical)","level":2,"score":0.6202784180641174},{"id":"https://openalex.org/C75553542","wikidata":"https://www.wikidata.org/wiki/Q178161","display_name":"A priori and a posteriori","level":2,"score":0.5089523792266846},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.47878989577293396},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4753541648387909},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4460406005382538},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4418635070323944},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.375448614358902},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.37161731719970703},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.16609907150268555},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.15442901849746704},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.11310815811157227},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C185933670","wikidata":"https://www.wikidata.org/wiki/Q52105","display_name":"Habitat","level":2,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bib/bbae092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae092","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbae092/56993007/bbae092.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:38493292","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38493292","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:research-information.bris.ac.uk:openaire_cris_publications/96213a61-7a5a-49df-81b9-d823096c38c6","is_oa":true,"landing_page_url":"https://research-information.bris.ac.uk/en/publications/96213a61-7a5a-49df-81b9-d823096c38c6","pdf_url":null,"source":{"id":"https://openalex.org/S4306400895","display_name":"Bristol Research (University of Bristol)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I36234482","host_organization_name":"University of Bristol","host_organization_lineage":["https://openalex.org/I36234482"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Campelo, F & Lobo, F P 2024, 'The rise of taxon-specific epitope predictors', Briefings in Bioinformatics, vol. 25, no. 2, bbae092. https://doi.org/10.1093/bib/bbae092","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:publications.aston.ac.uk:46155","is_oa":true,"landing_page_url":"https://publications.aston.ac.uk/view/author/e731149615ac85d43265dfea83ad1aec.html>","pdf_url":"https://publications.aston.ac.uk/id/eprint/46155/1/F_Campelo_and_FP_Lobo_Rise_of_taxon-specific_epitope_predators.pdf","source":{"id":"https://openalex.org/S4306400483","display_name":"Aston Publications Explorer (Aston University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I169199633","host_organization_name":"Aston University","host_organization_lineage":["https://openalex.org/I169199633"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:10944454","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10944454","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10944454/pdf/bbae092.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"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae092","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae092","pdf_url":"https://academic.oup.com/bib/article-pdf/25/2/bbae092/56993007/bbae092.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/11","score":0.4300000071525574,"display_name":"Sustainable cities and communities"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4392886136.pdf"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W2898389621","https://openalex.org/W3177226227","https://openalex.org/W3186767196","https://openalex.org/W4285803635","https://openalex.org/W4295095175","https://openalex.org/W4364354112","https://openalex.org/W4365510370","https://openalex.org/W4386412401","https://openalex.org/W6803669150"],"related_works":["https://openalex.org/W2306541987","https://openalex.org/W3135453479","https://openalex.org/W2947952289","https://openalex.org/W4322625948","https://openalex.org/W1986194836","https://openalex.org/W2896365120","https://openalex.org/W1986504168","https://openalex.org/W2095481932","https://openalex.org/W1454292034","https://openalex.org/W2021824670"],"abstract_inverted_index":{"Computational":[0],"predictors":[1],"of":[2,17,60,85,98,104],"immunogenic":[3],"peptides,":[4],"or":[5],"epitopes,":[6,107],"are":[7,52],"traditionally":[8],"built":[9],"based":[10],"on":[11,94],"data":[12],"from":[13,56],"a":[14,57],"broad":[15],"range":[16],"pathogens":[18],"without":[19],"consideration":[20],"for":[21,44,69,101],"taxonomic":[22],"information.":[23],"While":[24],"this":[25,88],"approach":[26],"may":[27,38],"be":[28,39],"reasonable":[29],"if":[30,41],"one":[31],"aims":[32],"to":[33,50,54],"develop":[34],"one-size-fits-all":[35],"models,":[36],"it":[37],"counterproductive":[40],"the":[42,46,95,102,109],"proteins":[43],"which":[45],"model":[47],"is":[48,65],"expected":[49],"generalize":[51],"known":[53],"come":[55],"specific":[58],"subset":[59],"phylogenetically":[61],"related":[62],"pathogens.":[63],"There":[64],"mounting":[66],"evidence":[67],"that,":[68],"these":[70,116],"cases,":[71],"taxon-specific":[72,99],"models":[73],"can":[74],"outperform":[75],"generalist":[76],"ones,":[77],"even":[78],"when":[79,112],"trained":[80],"with":[81],"substantially":[82],"smaller":[83],"amounts":[84],"data.":[86],"In":[87],"comment,":[89],"we":[90],"provide":[91],"some":[92],"perspective":[93],"current":[96],"state":[97],"modelling":[100],"prediction":[103],"linear":[105],"B-cell":[106],"and":[108,114],"challenges":[110],"faced":[111],"building":[113],"deploying":[115],"predictors.":[117]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
