{"id":"https://openalex.org/W2791104810","doi":"https://doi.org/10.1093/database/bay005","title":"Identification of errors in the IEDB using ontologies","display_name":"Identification of errors in the IEDB using ontologies","publication_year":2018,"publication_date":"2018-01-01","ids":{"openalex":"https://openalex.org/W2791104810","doi":"https://doi.org/10.1093/database/bay005","mag":"2791104810","pmid":"https://pubmed.ncbi.nlm.nih.gov/29688357"},"language":"en","primary_location":{"id":"doi:10.1093/database/bay005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay005","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay005/27438569/bay005.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","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/database/article-pdf/doi/10.1093/database/bay005/27438569/bay005.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069243187","display_name":"Randi Vita","orcid":"https://orcid.org/0000-0001-8957-7612"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Randi Vita","raw_affiliation_strings":["Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA"],"affiliations":[{"raw_affiliation_string":"Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009238690","display_name":"James A. Overton","orcid":"https://orcid.org/0000-0001-5139-5557"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James A Overton","raw_affiliation_strings":["Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA"],"affiliations":[{"raw_affiliation_string":"Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023547268","display_name":"Bjoern Peters","orcid":"https://orcid.org/0000-0002-8457-6693"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bjoern Peters","raw_affiliation_strings":["Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA"],"affiliations":[{"raw_affiliation_string":"Center for Infectious Disease, La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5069243187"],"corresponding_institution_ids":["https://openalex.org/I1311191458"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.3711,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.59366305,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"2018","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9983000159263611,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9983000159263611,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9797000288963318,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.7233470678329468},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.577323853969574},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4161185026168823},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39723077416419983},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3866483271121979},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1793067455291748},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.14227283000946045}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7233470678329468},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.577323853969574},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4161185026168823},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39723077416419983},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3866483271121979},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1793067455291748},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.14227283000946045}],"mesh":[{"descriptor_ui":"D000073886","descriptor_name":"Scientific Experimental Error","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073886","descriptor_name":"Scientific Experimental Error","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073886","descriptor_name":"Scientific Experimental Error","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000073886","descriptor_name":"Scientific Experimental Error","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/bay005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay005","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay005/27438569/bay005.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},{"id":"pmid:29688357","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29688357","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:5824775","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5824775","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/bay005","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bay005","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bay005/27438569/bay005.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["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":"Database","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4","score":0.5400000214576721}],"awards":[{"id":"https://openalex.org/G6845131987","display_name":null,"funder_award_id":"HHSN272201200010C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2791104810.pdf","grobid_xml":"https://content.openalex.org/works/W2791104810.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1543448539","https://openalex.org/W1993679825","https://openalex.org/W2021074129","https://openalex.org/W2044257395","https://openalex.org/W2053707749","https://openalex.org/W2096525273","https://openalex.org/W2103017472","https://openalex.org/W2105836514","https://openalex.org/W2106830745","https://openalex.org/W2113142309","https://openalex.org/W2116034137","https://openalex.org/W2125004669","https://openalex.org/W2130479394","https://openalex.org/W2142096740","https://openalex.org/W2142793248","https://openalex.org/W2154139219","https://openalex.org/W2159092541","https://openalex.org/W2163827272","https://openalex.org/W2237812244","https://openalex.org/W2559482520","https://openalex.org/W2572986783","https://openalex.org/W2595388646","https://openalex.org/W4210702584","https://openalex.org/W4230606671","https://openalex.org/W4230784961","https://openalex.org/W4233120011","https://openalex.org/W4234797890","https://openalex.org/W6631828510","https://openalex.org/W6632480193","https://openalex.org/W6655477598","https://openalex.org/W6661344633","https://openalex.org/W6663737834","https://openalex.org/W6675471023","https://openalex.org/W6675824812","https://openalex.org/W6675998624","https://openalex.org/W6677003940","https://openalex.org/W6677590824","https://openalex.org/W6678687371","https://openalex.org/W6680626828","https://openalex.org/W6680787510","https://openalex.org/W6683552020","https://openalex.org/W6683977930","https://openalex.org/W6689995944","https://openalex.org/W6730676412","https://openalex.org/W6734538694","https://openalex.org/W6807695228"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"The":[0],"Immune":[1],"Epitope":[2],"Database":[3],"(IEDB)":[4],"is":[5],"a":[6,40,133],"free":[7],"online":[8],"resource":[9],"that":[10],"has":[11],"manually":[12,134],"curated":[13,135],"over":[14],"18":[15],"500":[16],"references":[17],"from":[18],"the":[19,29,35,90,101,107],"scientific":[20],"literature.":[21],"Our":[22],"database":[23],"presents":[24],"experimental":[25],"data":[26,53],"relating":[27],"to":[28,46,77,127],"recognition":[30],"of":[31,109],"immune":[32,37],"epitopes":[33],"by":[34],"adaptive":[36],"system":[38],"in":[39,51,132],"structured,":[41],"searchable":[42],"manner.":[43],"In":[44],"order":[45],"be":[47,125],"consistent":[48],"and":[49,60,75,80,84,103,106,122,129],"accurate":[50],"our":[52,112],"representation":[54],"across":[55],"many":[56],"different":[57],"journals,":[58],"authors":[59],"curators,":[61],"we":[62,115],"have":[63,87],"implemented":[64],"several":[65],"quality":[66],"control":[67],"measures,":[68],"such":[69],"as":[70],"curation":[71,97],"rules,":[72],"controlled":[73],"vocabularies":[74],"links":[76],"external":[78],"ontologies":[79],"other":[81,85,104],"resources.":[82],"Ontologies":[83],"resources":[86],"greatly":[88],"benefited":[89],"IEDB":[91,102],"through":[92],"improved":[93],"search":[94],"interfaces,":[95],"easier":[96],"practices,":[98],"interoperability":[99],"between":[100],"databases":[105],"identification":[108],"errors":[110,131],"within":[111],"dataset.":[113],"Here,":[114],"will":[116],"elaborate":[117],"on":[118],"how":[119],"ontology":[120],"mapping":[121],"usage":[123],"can":[124],"used":[126],"find":[128],"correct":[130],"database.Database":[136],"URL:":[137],"www.iedb.org.":[138]},"counts_by_year":[{"year":2024,"cited_by_count":4},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
