{"id":"https://openalex.org/W2137116717","doi":"https://doi.org/10.1093/nar/gkp293","title":"OptiTope--a web server for the selection of an optimal set of peptides for epitope-based vaccines","display_name":"OptiTope--a web server for the selection of an optimal set of peptides for epitope-based vaccines","publication_year":2009,"publication_date":"2009-05-06","ids":{"openalex":"https://openalex.org/W2137116717","doi":"https://doi.org/10.1093/nar/gkp293","mag":"2137116717","pmid":"https://pubmed.ncbi.nlm.nih.gov/19420066"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkp293","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp293","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W617/3915902/gkp293.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","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/nar/article-pdf/37/suppl_2/W617/3915902/gkp293.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078378799","display_name":"Nora C. Toussaint","orcid":"https://orcid.org/0000-0001-7911-7647"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"N. C. Toussaint","raw_affiliation_strings":["Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany. toussaint@informatik.uni-tuebingen.de","Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany. toussaint@informatik.uni-tuebingen.de","institution_ids":["https://openalex.org/I8087733"]},{"raw_affiliation_string":"Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053621010","display_name":"Oliver Kohlbacher","orcid":"https://orcid.org/0000-0003-1739-4598"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"O. Kohlbacher","raw_affiliation_strings":["Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division for Simulation of Biological Systems, Wilhelm Schickard Institute for Computer Science, Center for Bioinformatics T\u00fcbingen, Eberhard-Karls-Universit\u00e4t T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5078378799"],"corresponding_institution_ids":["https://openalex.org/I8087733"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.1602,"has_fulltext":true,"cited_by_count":39,"citation_normalized_percentile":{"value":0.87448159,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"37","issue":"Web Server","first_page":"W617","last_page":"W622"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":1.0,"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":1.0,"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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10340","display_name":"Hepatitis B Virus Studies","score":0.9962000250816345,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.8156564831733704},{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.7773441076278687},{"id":"https://openalex.org/keywords/immunogenicity","display_name":"Immunogenicity","score":0.7300845384597778},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.7215818762779236},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6246955990791321},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5367198586463928},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.48460185527801514},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.4434535503387451},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.3631601929664612},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3282526433467865},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.31397658586502075}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8156564831733704},{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.7773441076278687},{"id":"https://openalex.org/C2780868878","wikidata":"https://www.wikidata.org/wiki/Q1660197","display_name":"Immunogenicity","level":3,"score":0.7300845384597778},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.7215818762779236},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6246955990791321},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5367198586463928},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.48460185527801514},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.4434535503387451},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.3631601929664612},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3282526433467865},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.31397658586502075},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","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":"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":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","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":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022223","descriptor_name":"Vaccines, Subunit","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D022223","descriptor_name":"Vaccines, Subunit","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D022223","descriptor_name":"Vaccines, Subunit","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/nar/gkp293","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp293","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W617/3915902/gkp293.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:19420066","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19420066","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2703925","is_oa":true,"landing_page_url":"http://doi.org/10.1093/nar/gkp293","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkp293","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp293","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_2/W617/3915902/gkp293.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.7699999809265137,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2137116717.pdf","grobid_xml":"https://content.openalex.org/works/W2137116717.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W90110751","https://openalex.org/W1675195038","https://openalex.org/W1994048581","https://openalex.org/W2014753230","https://openalex.org/W2034694458","https://openalex.org/W2040270003","https://openalex.org/W2042279032","https://openalex.org/W2062018073","https://openalex.org/W2068945309","https://openalex.org/W2093658347","https://openalex.org/W2118045183","https://openalex.org/W2142636897","https://openalex.org/W2142739377","https://openalex.org/W2166376330","https://openalex.org/W2166831581"],"related_works":["https://openalex.org/W1979044599","https://openalex.org/W1552738310","https://openalex.org/W4250292386","https://openalex.org/W2021824670","https://openalex.org/W2009867644","https://openalex.org/W2363997565","https://openalex.org/W2019183242","https://openalex.org/W203802859","https://openalex.org/W2381567441","https://openalex.org/W3111171798"],"abstract_inverted_index":{"Epitope-based":[0],"vaccines":[1],"(EVs)":[2],"have":[3],"recently":[4],"been":[5],"attracting":[6],"significant":[7],"interest.":[8],"They":[9],"trigger":[10],"an":[11,80,129],"immune":[12,17,44],"response":[13],"by":[14],"confronting":[15],"the":[16,36,49,71,88,104],"system":[18,45],"with":[19,140],"immunogenic":[20],"peptides":[21,32,74,92],"derived":[22],"from,":[23],"e.g.":[24],"viral-":[25],"or":[26,151],"cancer-related":[27],"proteins.":[28],"Binding":[29],"of":[30,60,73,91,113,138],"these":[31],"to":[33,86,132,142],"proteins":[34],"from":[35],"major":[37],"histocompatibility":[38],"complex":[39],"(MHC)":[40],"is":[41,51,84,161],"crucial":[42,85],"for":[43,93],"activation.":[46],"However,":[47],"since":[48],"MHC":[50,100],"highly":[52],"polymorphic,":[53],"different":[54,58],"patients":[55],"typically":[56],"bind":[57],"repertoires":[59],"peptides.":[61,115],"Furthermore,":[62],"economical":[63],"and":[64,110],"regulatory":[65],"issues":[66],"impose":[67],"strong":[68],"limitations":[69],"on":[70],"number":[72,112],"that":[75],"can":[76],"be":[77],"included":[78],"in":[79,103,121,145],"EV.":[81],"Hence,":[82],"it":[83],"identify":[87],"optimal":[89,136],"set":[90,137],"a":[94,134,146,152,156],"vaccine,":[95],"given":[96],"constraints":[97],"such":[98],"as":[99],"allele":[101],"probabilities":[102],"target":[105,153],"population,":[106],"peptide":[107],"mutation":[108],"rates":[109],"maximum":[111],"selected":[114],"OptiTope":[116,160],"aims":[117],"at":[118,163],"assisting":[119],"immunologists":[120],"this":[122],"critical":[123],"task.":[124],"With":[125],"OptiTope,":[126],"we":[127],"provide":[128],"easy-to-use":[130],"tool":[131],"determine":[133],"provably":[135],"epitopes":[139],"respect":[141],"overall":[143],"immunogenicity":[144],"specific":[147],"individual":[148],"(personalized":[149],"medicine)":[150],"population":[154],"(e.g.":[155],"certain":[157],"ethnic":[158],"group).":[159],"available":[162],"http://www.epitoolkit.org/optitope.":[164]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":9}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
