{"id":"https://openalex.org/W2066486104","doi":"https://doi.org/10.1145/2147805.2147906","title":"Immunoinformatic discovery of potential cross-reactive T cell epitopes in the measles genome","display_name":"Immunoinformatic discovery of potential cross-reactive T cell epitopes in the measles genome","publication_year":2011,"publication_date":"2011-08-01","ids":{"openalex":"https://openalex.org/W2066486104","doi":"https://doi.org/10.1145/2147805.2147906","mag":"2066486104"},"language":"en","primary_location":{"id":"doi:10.1145/2147805.2147906","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147906","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://digitalcommons.uri.edu/cmb_facpubs/353","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061582756","display_name":"Leonard Moise","orcid":"https://orcid.org/0000-0002-4410-865X"},"institutions":[{"id":"https://openalex.org/I17626003","display_name":"University of Rhode Island","ror":"https://ror.org/013ckk937","country_code":"US","type":"education","lineage":["https://openalex.org/I17626003"]},{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lenny Moise","raw_affiliation_strings":["University of Rhode Island, Providence, RI"],"affiliations":[{"raw_affiliation_string":"University of Rhode Island, Providence, RI","institution_ids":["https://openalex.org/I17626003","https://openalex.org/I196272386"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110643156","display_name":"Matthew Ardito","orcid":null},"institutions":[{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]},{"id":"https://openalex.org/I4210147457","display_name":"EpiVax (United States)","ror":"https://ror.org/055qxpb63","country_code":"US","type":"company","lineage":["https://openalex.org/I4210147457"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew Ardito","raw_affiliation_strings":["EpiVax, Inc., Providence, RI"],"affiliations":[{"raw_affiliation_string":"EpiVax, Inc., Providence, RI","institution_ids":["https://openalex.org/I4210147457","https://openalex.org/I196272386"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053675979","display_name":"William Martin","orcid":"https://orcid.org/0000-0001-8694-494X"},"institutions":[{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]},{"id":"https://openalex.org/I4210147457","display_name":"EpiVax (United States)","ror":"https://ror.org/055qxpb63","country_code":"US","type":"company","lineage":["https://openalex.org/I4210147457"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William Martin","raw_affiliation_strings":["EpiVax, Inc., Providence, RI"],"affiliations":[{"raw_affiliation_string":"EpiVax, Inc., Providence, RI","institution_ids":["https://openalex.org/I4210147457","https://openalex.org/I196272386"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012263073","display_name":"Eric A. Gustafson","orcid":null},"institutions":[{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]},{"id":"https://openalex.org/I17626003","display_name":"University of Rhode Island","ror":"https://ror.org/013ckk937","country_code":"US","type":"education","lineage":["https://openalex.org/I17626003"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eric Gustafson","raw_affiliation_strings":["University of Rhode Island, Providence, RI"],"affiliations":[{"raw_affiliation_string":"University of Rhode Island, Providence, RI","institution_ids":["https://openalex.org/I17626003","https://openalex.org/I196272386"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042897977","display_name":"Alan L. Rothman","orcid":"https://orcid.org/0000-0002-4064-6848"},"institutions":[{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]},{"id":"https://openalex.org/I17626003","display_name":"University of Rhode Island","ror":"https://ror.org/013ckk937","country_code":"US","type":"education","lineage":["https://openalex.org/I17626003"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alan Rothman","raw_affiliation_strings":["University of Rhode Island, Providence, RI"],"affiliations":[{"raw_affiliation_string":"University of Rhode Island, Providence, RI","institution_ids":["https://openalex.org/I17626003","https://openalex.org/I196272386"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089204881","display_name":"Anne S. De Groot","orcid":"https://orcid.org/0000-0001-5911-1459"},"institutions":[{"id":"https://openalex.org/I196272386","display_name":"Providence College","ror":"https://ror.org/00rxpqe74","country_code":"US","type":"education","lineage":["https://openalex.org/I196272386"]},{"id":"https://openalex.org/I4210147457","display_name":"EpiVax (United States)","ror":"https://ror.org/055qxpb63","country_code":"US","type":"company","lineage":["https://openalex.org/I4210147457"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anne S. De Groot","raw_affiliation_strings":["Institute for Immunology and Informatics and EpiVax, Inc., Providence, RI"],"affiliations":[{"raw_affiliation_string":"Institute for Immunology and Informatics and EpiVax, Inc., Providence, RI","institution_ids":["https://openalex.org/I4210147457","https://openalex.org/I196272386"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5061582756"],"corresponding_institution_ids":["https://openalex.org/I17626003","https://openalex.org/I196272386"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.10886062,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"589","last_page":"593"},"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/T11135","display_name":"Virology and Viral Diseases","score":0.9979000091552734,"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"}},{"id":"https://openalex.org/T13410","display_name":"Immune responses and vaccinations","score":0.9932000041007996,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.9477583169937134},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6915335655212402},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5476667881011963},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.49235546588897705},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.48327308893203735},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.474918931722641},{"id":"https://openalex.org/keywords/measles-virus","display_name":"Measles virus","score":0.4591614007949829},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.4568811357021332},{"id":"https://openalex.org/keywords/t-cell","display_name":"T cell","score":0.4379880726337433},{"id":"https://openalex.org/keywords/cross-reactivity","display_name":"Cross-reactivity","score":0.42477360367774963},{"id":"https://openalex.org/keywords/immunity","display_name":"Immunity","score":0.4146782457828522},{"id":"https://openalex.org/keywords/measles","display_name":"Measles","score":0.3624038100242615},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33255529403686523},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.29737168550491333},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.277121901512146},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2159382402896881},{"id":"https://openalex.org/keywords/vaccination","display_name":"Vaccination","score":0.16818436980247498}],"concepts":[{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.9477583169937134},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6915335655212402},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5476667881011963},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.49235546588897705},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.48327308893203735},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.474918931722641},{"id":"https://openalex.org/C2778199166","wikidata":"https://www.wikidata.org/wiki/Q573943","display_name":"Measles virus","level":4,"score":0.4591614007949829},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.4568811357021332},{"id":"https://openalex.org/C2776090121","wikidata":"https://www.wikidata.org/wiki/Q193529","display_name":"T cell","level":3,"score":0.4379880726337433},{"id":"https://openalex.org/C2779142602","wikidata":"https://www.wikidata.org/wiki/Q1760689","display_name":"Cross-reactivity","level":4,"score":0.42477360367774963},{"id":"https://openalex.org/C2779341262","wikidata":"https://www.wikidata.org/wiki/Q182581","display_name":"Immunity","level":3,"score":0.4146782457828522},{"id":"https://openalex.org/C2776438120","wikidata":"https://www.wikidata.org/wiki/Q79793","display_name":"Measles","level":3,"score":0.3624038100242615},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33255529403686523},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.29737168550491333},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.277121901512146},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2159382402896881},{"id":"https://openalex.org/C22070199","wikidata":"https://www.wikidata.org/wiki/Q192995","display_name":"Vaccination","level":2,"score":0.16818436980247498},{"id":"https://openalex.org/C3020064264","wikidata":"https://www.wikidata.org/wiki/Q1760689","display_name":"Cross reactions","level":3,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/2147805.2147906","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2147805.2147906","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2nd ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":"proceedings-article"},{"id":"pmh:oai:digitalcommons.uri.edu:cmb_facpubs-1356","is_oa":true,"landing_page_url":"https://digitalcommons.uri.edu/cmb_facpubs/353","pdf_url":null,"source":{"id":"https://openalex.org/S2764761010","display_name":"Journal of Media Literacy Education","issn_l":"2167-8715","issn":["2167-8715"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310316378","host_organization_name":"National Association for Media Literacy Education","host_organization_lineage":["https://openalex.org/P4310316378"],"host_organization_lineage_names":["National Association for Media Literacy Education"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Cell and Molecular Biology Faculty Publications","raw_type":"text"}],"best_oa_location":{"id":"pmh:oai:digitalcommons.uri.edu:cmb_facpubs-1356","is_oa":true,"landing_page_url":"https://digitalcommons.uri.edu/cmb_facpubs/353","pdf_url":null,"source":{"id":"https://openalex.org/S2764761010","display_name":"Journal of Media Literacy Education","issn_l":"2167-8715","issn":["2167-8715"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310316378","host_organization_name":"National Association for Media Literacy Education","host_organization_lineage":["https://openalex.org/P4310316378"],"host_organization_lineage_names":["National Association for Media Literacy Education"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Cell and Molecular Biology Faculty Publications","raw_type":"text"},"sustainable_development_goals":[{"score":0.7900000214576721,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W23702867","https://openalex.org/W83936435","https://openalex.org/W1963874233","https://openalex.org/W2015855391","https://openalex.org/W2018365600","https://openalex.org/W2020646715","https://openalex.org/W2023046869","https://openalex.org/W2044332532","https://openalex.org/W2067352440","https://openalex.org/W2079778884","https://openalex.org/W2093658347","https://openalex.org/W2106638291","https://openalex.org/W2131186249","https://openalex.org/W2136349638","https://openalex.org/W2137879329","https://openalex.org/W2138829684","https://openalex.org/W2145292348","https://openalex.org/W2175051607"],"related_works":["https://openalex.org/W2021824670","https://openalex.org/W2009867644","https://openalex.org/W2363997565","https://openalex.org/W2134412147","https://openalex.org/W2015848115","https://openalex.org/W2351315178","https://openalex.org/W2891417088","https://openalex.org/W203802859","https://openalex.org/W2083920981","https://openalex.org/W1257198636"],"abstract_inverted_index":{"T":[0,21,38,55,65,172],"cells":[1,57],"are":[2,85,98,125],"key":[3],"mediators":[4],"of":[5,36,64,76,137,155,157],"inflammatory":[6],"processes":[7],"that":[8,24,90,124,175],"can":[9,25],"be":[10],"activated":[11],"by":[12,95],"pathogens":[13,70],"and":[14,71,74,81,101,130,135,152],"vaccines.":[15],"Some":[16],"vaccine":[17,97,122],"antigens":[18],"may":[19],"encode":[20],"cell":[22,39,66,173],"epitopes":[23,67,78,123,139],"cross-react":[26],"with":[27,127,131],"either":[28],"human":[29,31,80,150,159],"or":[30,108],"microbiome":[32],"epitopes,":[33],"causing":[34],"deviation":[35],"the":[37,142,149,158],"response,":[40],"leading":[41],"to":[42,53,88,116,148],"beneficial":[43],"or,":[44],"possibly,":[45],"detrimental":[46],"effects.":[47],"An":[48],"immune":[49,92],"response":[50],"shift":[51],"attributed":[52],"cross-reactive":[54,105],"memory":[56],"is":[58,168],"known":[59],"as":[60],"heterologous":[61],"immunity.":[62],"Identification":[63],"contained":[68],"in":[69],"their":[72],"vaccines":[73],"comparison":[75],"these":[77],"against":[79,106],"microbial":[82],"genomic":[83],"datasets":[84],"important":[86,163],"steps":[87],"ensure":[89],"adaptive":[91],"responses":[93],"elicited":[94],"a":[96,153],"both":[99],"pathogen-specific":[100],"protective,":[102],"but":[103],"not":[104],"host":[107],"host-associated":[109],"epitopes.":[110],"Here,":[111],"we":[112],"use":[113],"immunoinformatic":[114],"methods":[115],"identify":[117],"putative":[118,138],"HLA":[119],"A2-restricted":[120],"measles":[121,143],"cross-conserved":[126],"autologous":[128],"proteins":[129],"commensal":[132],"microbiota.":[133],"45%":[134],"63%":[136],"identified":[140],"within":[141],"genome":[144,151],"share":[145],"significant":[146,169],"homology":[147],"subset":[154],"genomes":[156],"microbiome,":[160],"respectively.":[161],"This":[162],"new":[164],"information":[165],"suggests":[166],"there":[167],"potential":[170],"for":[171],"cross-reactivity":[174],"will":[176],"require":[177],"experimental":[178],"confirmation.":[179]},"counts_by_year":[],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
