{"id":"https://openalex.org/W2141316307","doi":"https://doi.org/10.1186/1471-2105-9-538","title":"Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis","display_name":"Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis","publication_year":2008,"publication_date":"2008-12-01","ids":{"openalex":"https://openalex.org/W2141316307","doi":"https://doi.org/10.1186/1471-2105-9-538","mag":"2141316307","pmid":"https://pubmed.ncbi.nlm.nih.gov/19087303"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-538","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-538","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-538","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-538","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061526123","display_name":"Yan Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Xin Huang","raw_affiliation_strings":["Institute of Genetics and Cytology, Northeast Normal University, Changchun, PR China. nenu_huangyx@tom.com","Institute of Genetics and Cytology, Northeast Normal University, Changchun, 130024, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Genetics and Cytology, Northeast Normal University, Changchun, PR China. nenu_huangyx@tom.com","institution_ids":["https://openalex.org/I184983240"]},{"raw_affiliation_string":"Institute of Genetics and Cytology, Northeast Normal University, Changchun, 130024, PR China","institution_ids":["https://openalex.org/I184983240"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103919227","display_name":"Yong Bao","orcid":null},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yong Li Bao","raw_affiliation_strings":["Research Center of Agriculture and Medicine Gene Engineering of Ministry of Education, Northeast Normal University, Changchun, 130024, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Agriculture and Medicine Gene Engineering of Ministry of Education, Northeast Normal University, Changchun, 130024, PR China","institution_ids":["https://openalex.org/I184983240"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044404501","display_name":"Shu Guo","orcid":null},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shu Yan Guo","raw_affiliation_strings":["Research Center of Agriculture and Medicine Gene Engineering of Ministry of Education, Northeast Normal University, Changchun, 130024, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Research Center of Agriculture and Medicine Gene Engineering of Ministry of Education, Northeast Normal University, Changchun, 130024, PR China","institution_ids":["https://openalex.org/I184983240"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100765556","display_name":"Yan Wang","orcid":"https://orcid.org/0000-0002-8943-1063"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I4210134929","display_name":"Jilin Province Science and Technology Department","ror":"https://ror.org/049x38272","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210134929"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Wang","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University, Changchun, 130012, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University, Changchun, 130012, PR China","institution_ids":["https://openalex.org/I4210134929","https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100833800","display_name":"Chun Guang Zhou","orcid":null},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I4210134929","display_name":"Jilin Province Science and Technology Department","ror":"https://ror.org/049x38272","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210134929"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chun Guang Zhou","raw_affiliation_strings":["College of Computer Science and Technology, Jilin University, Changchun, 130012, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Jilin University, Changchun, 130012, PR China","institution_ids":["https://openalex.org/I4210134929","https://openalex.org/I194450716"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5030631279","display_name":"Yu Xin Li","orcid":null},"institutions":[{"id":"https://openalex.org/I184983240","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144","country_code":"CN","type":"education","lineage":["https://openalex.org/I184983240"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yu Xin Li","raw_affiliation_strings":["Institute of Genetics and Cytology, Northeast Normal University, Changchun, 130024, PR China","National Engineering Laboratory for Druggable Gene and Protein Screening, Northeast Normal University, Changchun, 130024, PR China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Genetics and Cytology, Northeast Normal University, Changchun, 130024, PR China","institution_ids":["https://openalex.org/I184983240"]},{"raw_affiliation_string":"National Engineering Laboratory for Druggable Gene and Protein Screening, Northeast Normal University, Changchun, 130024, PR China","institution_ids":["https://openalex.org/I184983240"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5030631279"],"corresponding_institution_ids":["https://openalex.org/I184983240"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.2465,"has_fulltext":true,"cited_by_count":64,"citation_normalized_percentile":{"value":0.87960346,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"9","issue":"1","first_page":"538","last_page":"538"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9865999817848206,"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":0.9865999817848206,"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/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.009800000116229057,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"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/T10580","display_name":"Immunotherapy and Immune Responses","score":0.0012000000569969416,"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/mimotope","display_name":"Mimotope","score":0.9936091303825378},{"id":"https://openalex.org/keywords/epitope","display_name":"Epitope","score":0.9335525035858154},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6851727366447449},{"id":"https://openalex.org/keywords/linear-epitope","display_name":"Linear epitope","score":0.6073629856109619},{"id":"https://openalex.org/keywords/epitope-mapping","display_name":"Epitope mapping","score":0.576808512210846},{"id":"https://openalex.org/keywords/monoclonal-antibody","display_name":"Monoclonal antibody","score":0.48263412714004517},{"id":"https://openalex.org/keywords/conformational-epitope","display_name":"Conformational epitope","score":0.4704994857311249},{"id":"https://openalex.org/keywords/phage-display","display_name":"Phage display","score":0.4401395320892334},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4151507616043091},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.38385242223739624},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3275632858276367},{"id":"https://openalex.org/keywords/antibody","display_name":"Antibody","score":0.31450745463371277},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1638275682926178}],"concepts":[{"id":"https://openalex.org/C9365378","wikidata":"https://www.wikidata.org/wiki/Q426454","display_name":"Mimotope","level":4,"score":0.9936091303825378},{"id":"https://openalex.org/C195616568","wikidata":"https://www.wikidata.org/wiki/Q128711","display_name":"Epitope","level":3,"score":0.9335525035858154},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6851727366447449},{"id":"https://openalex.org/C78598654","wikidata":"https://www.wikidata.org/wiki/Q17140316","display_name":"Linear epitope","level":4,"score":0.6073629856109619},{"id":"https://openalex.org/C2781241564","wikidata":"https://www.wikidata.org/wiki/Q1347450","display_name":"Epitope mapping","level":4,"score":0.576808512210846},{"id":"https://openalex.org/C542903549","wikidata":"https://www.wikidata.org/wiki/Q422248","display_name":"Monoclonal antibody","level":3,"score":0.48263412714004517},{"id":"https://openalex.org/C2780632150","wikidata":"https://www.wikidata.org/wiki/Q5160267","display_name":"Conformational epitope","level":4,"score":0.4704994857311249},{"id":"https://openalex.org/C186268636","wikidata":"https://www.wikidata.org/wiki/Q896217","display_name":"Phage display","level":3,"score":0.4401395320892334},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4151507616043091},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.38385242223739624},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3275632858276367},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.31450745463371277},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1638275682926178}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018604","descriptor_name":"Epitope Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D018985","descriptor_name":"Epitopes, B-Lymphocyte","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019151","descriptor_name":"Peptide Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019151","descriptor_name":"Peptide Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019151","descriptor_name":"Peptide Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019151","descriptor_name":"Peptide Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-9-538","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-538","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-538","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19087303","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19087303","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:5616b99d87cf4f3eb36794153ecf71bc","is_oa":true,"landing_page_url":"https://doaj.org/article/5616b99d87cf4f3eb36794153ecf71bc","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss 1, p 538 (2008)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:1414278","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2639436","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-538","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-538","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-538","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G359625266","display_name":null,"funder_award_id":"NCET-06-0320","funder_id":"https://openalex.org/F4320334924","funder_display_name":"Program for New Century Excellent Talents in University"}],"funders":[{"id":"https://openalex.org/F4320313888","display_name":"Northeast Normal University","ror":"https://ror.org/02rkvz144"},{"id":"https://openalex.org/F4320321543","display_name":"China Postdoctoral Science Foundation","ror":"https://ror.org/0426zh255"},{"id":"https://openalex.org/F4320322174","display_name":"People's Government of Jilin Province","ror":"https://ror.org/02fzqav45"},{"id":"https://openalex.org/F4320334924","display_name":"Program for New Century Excellent Talents in University","ror":"https://ror.org/01mv9t934"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2141316307.pdf","grobid_xml":"https://content.openalex.org/works/W2141316307.grobid-xml"},"referenced_works_count":53,"referenced_works":["https://openalex.org/W8605269","https://openalex.org/W62276193","https://openalex.org/W70368499","https://openalex.org/W1530470635","https://openalex.org/W1535117461","https://openalex.org/W1570981769","https://openalex.org/W1603416030","https://openalex.org/W1606917100","https://openalex.org/W1747519124","https://openalex.org/W1748133846","https://openalex.org/W1801849579","https://openalex.org/W1965173570","https://openalex.org/W1968643522","https://openalex.org/W1972242350","https://openalex.org/W1976801077","https://openalex.org/W1981619807","https://openalex.org/W2001896084","https://openalex.org/W2014709498","https://openalex.org/W2024514006","https://openalex.org/W2024563556","https://openalex.org/W2027662505","https://openalex.org/W2027753686","https://openalex.org/W2042492527","https://openalex.org/W2058477978","https://openalex.org/W2059178238","https://openalex.org/W2081430720","https://openalex.org/W2085249866","https://openalex.org/W2087230890","https://openalex.org/W2091852797","https://openalex.org/W2092274066","https://openalex.org/W2096445115","https://openalex.org/W2097671323","https://openalex.org/W2097874743","https://openalex.org/W2099427184","https://openalex.org/W2103313179","https://openalex.org/W2104009289","https://openalex.org/W2106150646","https://openalex.org/W2106612397","https://openalex.org/W2106882534","https://openalex.org/W2107941094","https://openalex.org/W2109553965","https://openalex.org/W2115165883","https://openalex.org/W2115592403","https://openalex.org/W2133034893","https://openalex.org/W2136877202","https://openalex.org/W2137575262","https://openalex.org/W2140468230","https://openalex.org/W2149984099","https://openalex.org/W2158781610","https://openalex.org/W2160397907","https://openalex.org/W2165224041","https://openalex.org/W2169124753","https://openalex.org/W2525794808"],"related_works":["https://openalex.org/W2361799422","https://openalex.org/W3144787093","https://openalex.org/W3032052102","https://openalex.org/W2242496419","https://openalex.org/W2076628539","https://openalex.org/W2503828389","https://openalex.org/W972031962","https://openalex.org/W2141316307","https://openalex.org/W49053791","https://openalex.org/W4289953209"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,16,282,322,413],"prediction":[2,159,244],"of":[3,9,34,45,116,135,170,176,186,202,210,263,285,294,301,307,330,336,345],"conformational":[4,108],"B-cell":[5,157],"epitopes":[6,109,206,213],"is":[7,143],"one":[8],"the":[10,32,85,114,132,136,141,167,184,200,220,226,261,326,334,337,342,350,362,367,383,388,423],"most":[11],"important":[12],"goals":[13],"in":[14,26,80,119,192,315,425],"immunoinformatics.":[15],"solution":[17],"to":[18,29,66,74,84,204,265,270,289,292,311,347,364,408,421],"this":[19,43,111,150,426],"problem,":[20],"even":[21],"if":[22],"approximate,":[23],"would":[24],"help":[25],"designing":[27],"experiments":[28],"precisely":[30,348],"map":[31],"residues":[33],"interaction":[35,137],"between":[36],"an":[37,40,171],"antigen":[38,172],"and":[39,55,110,173,233,238,251,253,399,402,416,431],"antibody.":[41],"Consequently,":[42],"area":[44],"research":[46,118],"has":[47,112,361],"received":[48],"considerable":[49],"attention":[50],"from":[51,183,207,223],"immunologists,":[52],"structural":[53],"biologists":[54],"computational":[56],"biologists.":[57],"Phage-displayed":[58],"random":[59],"peptide":[60],"libraries":[61],"are":[62,70,428],"powerful":[63,379],"tools":[64],"used":[65,191,407,420],"obtain":[67,422],"mimotopes":[68,89,142,177],"that":[69,293,359],"selected":[71],"by":[72,140,215,371,387],"binding":[73],"a":[75,81,145,154,174,179,208,224,267,271,299,319,378,391],"given":[76],"monoclonal":[77],"antibody":[78],"(mAb)":[79],"similar":[82,296],"way":[83],"native":[86],"epitope.":[87],"These":[88],"can":[90,101,189,396,404],"be":[91,190,290,397,406,439],"considered":[92],"as":[93,432],"functional":[94],"epitope":[95,158,368],"mimics.":[96],"Mimotope":[97],"analysis":[98,128,163],"based":[99,125,160],"methods":[100],"predict":[102,205],"not":[103,354],"only":[104],"linear":[105],"but":[106],"also":[107,405],"been":[113,130],"focus":[115],"much":[117],"recent":[120],"years.":[121],"Though":[122],"some":[123],"algorithms":[124],"on":[126,161,318],"mimotope":[127,162,195],"have":[129],"proposed,":[131],"precise":[133],"localization":[134],"site":[138],"mimicked":[139,370,386],"still":[144],"challenging":[146],"task.":[147],"RESULTS:":[148],"In":[149],"study,":[151],"we":[152],"propose":[153],"method":[155],"for":[156,274,381],"called":[164],"Pep-3D-Search.":[165],"Given":[166],"3D":[168,272,320],"structure":[169,273],"set":[175,185,209,300],"(or":[178],"motif":[180,268],"sequence":[181,269,339],"derived":[182],"mimotopes),":[187],"Pep-3D-Search":[188,203,246,264,286,346,360,376,395],"two":[193],"modes:":[194],"or":[196],"motif.":[197],"To":[198,259],"evaluate":[199],"performance":[201,284],"mimotopes,":[211],"10":[212],"defined":[214],"crystallography":[216],"were":[217,235,280],"compared":[218],"with":[219,241,304],"predicted":[221],"results":[222,324,424],"Pep-3D-Search:":[225],"average":[227],"Matthews":[228],"correlation":[229],"coefficient":[230],"(MCC),":[231],"sensitivity":[232],"precision":[234],"0.1758,":[236],"0.3642":[237],"0.6948.":[239],"Compared":[240],"other":[242,295,410],"available":[243,393,429],"algorithms,":[245],"showed":[247],"comparable":[248],"MCC,":[249],"specificity":[250],"precision,":[252],"could":[254],"provide":[255],"novel,":[256],"rational":[257],"results.":[258],"verify":[260],"capability":[262,314,329],"align":[266],"predicting":[275],"epitopes,":[276],"6":[277],"test":[278,302],"cases":[279,303],"used.":[281],"predictive":[283],"was":[287,309],"demonstrated":[288,325],"superior":[291],"programs.":[297],"Furthermore,":[298],"different":[305],"lengths":[306],"sequences":[308,317],"constructed":[310],"examine":[312],"Pep-3D-Search's":[313],"searching":[316],"structure.":[321],"experimental":[323],"excellent":[327],"search":[328],"Pep-3D-Search,":[331],"especially":[332],"when":[333],"length":[335],"query":[338],"becomes":[340],"longer;":[341],"iteration":[343],"numbers":[344],"localize":[349,366],"target":[351],"paths":[352],"did":[353],"obviously":[355],"increase.":[356],"This":[357],"means":[358],"potential":[363],"quickly":[365],"regions":[369],"longer":[372],"mimotopes.":[373,389],"CONCLUSION:":[374],"Our":[375],"provides":[377],"approach":[380],"localizing":[382],"surface":[384],"region":[385],"As":[390],"publicly":[392],"tool,":[394],"utilized":[398],"conveniently":[400],"evaluated,":[401],"it":[403],"complement":[409],"existing":[411],"tools.":[412],"data":[414],"sets":[415],"open":[417],"source":[418],"code":[419],"paper":[427],"on-line":[430],"supplementary":[433],"material.":[434],"More":[435],"detailed":[436],"materials":[437],"may":[438],"accessed":[440],"at":[441],"(http://kyc.nenu.edu.cn/Pep3DSearch/).":[442]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":7}],"updated_date":"2026-06-26T08:34:08.712188","created_date":"2025-10-10T00:00:00"}