{"id":"https://openalex.org/W2095851939","doi":"https://doi.org/10.1504/ijdmb.2013.056079","title":"Template-based scoring functions for visualising biological insights of H-2K&lt;SUP align=\"right\"&gt;b&lt;/SUP&gt;-peptide-TCR complexes","display_name":"Template-based scoring functions for visualising biological insights of H-2K&lt;SUP align=\"right\"&gt;b&lt;/SUP&gt;-peptide-TCR complexes","publication_year":2013,"publication_date":"2013-01-01","ids":{"openalex":"https://openalex.org/W2095851939","doi":"https://doi.org/10.1504/ijdmb.2013.056079","mag":"2095851939","pmid":"https://pubmed.ncbi.nlm.nih.gov/24417025"},"language":"en","primary_location":{"id":"doi:10.1504/ijdmb.2013.056079","is_oa":false,"landing_page_url":"https://doi.org/10.1504/ijdmb.2013.056079","pdf_url":null,"source":{"id":"https://openalex.org/S35771696","display_name":"International Journal of Data Mining and Bioinformatics","issn_l":"1748-5673","issn":["1748-5673","1748-5681"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310317825","host_organization_name":"Inderscience Publishers","host_organization_lineage":["https://openalex.org/P4310317825"],"host_organization_lineage_names":["Inderscience Publishers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Data Mining and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111362663","display_name":"Isabelle Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"I Hsin Liu","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan. liuihsin1112@gmail.com","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#"],"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan. liuihsin1112@gmail.com","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103531565","display_name":"Yu Shu Lo","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Yu Shu Lo","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#"],"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088590993","display_name":"Jinn\u2010Moon Yang","orcid":"https://orcid.org/0000-0002-3205-4391"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Jinn Moon Yang","raw_affiliation_strings":["Core Facility for Structural Bioinformatics, Institute of Bioinformatics and Systems Biology, Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30050, Taiwan","Core Facility for Structural Bioinformatics, Institute of Bioinformatics and Systems Biology, Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#"],"affiliations":[{"raw_affiliation_string":"Core Facility for Structural Bioinformatics, Institute of Bioinformatics and Systems Biology, Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30050, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Core Facility for Structural Bioinformatics, Institute of Bioinformatics and Systems Biology, Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30050, Taiwan#TAB#","institution_ids":["https://openalex.org/I148366613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5111362663"],"corresponding_institution_ids":["https://openalex.org/I148366613"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.09653849,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"8","issue":"3","first_page":"326","last_page":"326"},"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/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9980000257492065,"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":0.9962999820709229,"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/t-cell-receptor","display_name":"T-cell receptor","score":0.898231029510498},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.7701345682144165},{"id":"https://openalex.org/keywords/peptide","display_name":"Peptide","score":0.6626352667808533},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5903074145317078},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5641695261001587},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.47606343030929565},{"id":"https://openalex.org/keywords/t-cell","display_name":"T cell","score":0.4316585958003998},{"id":"https://openalex.org/keywords/mhc-class-i","display_name":"MHC class I","score":0.42069464921951294},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.37091362476348877},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.23274055123329163},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2084343433380127}],"concepts":[{"id":"https://openalex.org/C19317047","wikidata":"https://www.wikidata.org/wiki/Q412037","display_name":"T-cell receptor","level":4,"score":0.898231029510498},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.7701345682144165},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.6626352667808533},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5903074145317078},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5641695261001587},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.47606343030929565},{"id":"https://openalex.org/C2776090121","wikidata":"https://www.wikidata.org/wiki/Q193529","display_name":"T cell","level":3,"score":0.4316585958003998},{"id":"https://openalex.org/C170627219","wikidata":"https://www.wikidata.org/wiki/Q13218497","display_name":"MHC class I","level":4,"score":0.42069464921951294},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.37091362476348877},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.23274055123329163},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2084343433380127}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006183","descriptor_name":"H-2 Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011948","descriptor_name":"Receptors, Antigen, T-Cell","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1504/ijdmb.2013.056079","is_oa":false,"landing_page_url":"https://doi.org/10.1504/ijdmb.2013.056079","pdf_url":null,"source":{"id":"https://openalex.org/S35771696","display_name":"International Journal of Data Mining and Bioinformatics","issn_l":"1748-5673","issn":["1748-5673","1748-5681"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310317825","host_organization_name":"Inderscience Publishers","host_organization_lineage":["https://openalex.org/P4310317825"],"host_organization_lineage_names":["Inderscience Publishers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Data Mining and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24417025","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24417025","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":"International journal of data mining and bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.7099999785423279}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321026","display_name":"Ministry of Earth Sciences","ror":"https://ror.org/013cf5k59"},{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"},{"id":"https://openalex.org/F4320323443","display_name":"National Chiao Tung University","ror":"https://ror.org/00se2k293"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W24553703","https://openalex.org/W1559325378","https://openalex.org/W1979107927","https://openalex.org/W1994048581","https://openalex.org/W2028339001","https://openalex.org/W2043071727","https://openalex.org/W2053564254","https://openalex.org/W2053843590","https://openalex.org/W2062018073","https://openalex.org/W2062470335","https://openalex.org/W2077529366","https://openalex.org/W2079988374","https://openalex.org/W2083978969","https://openalex.org/W2131363383","https://openalex.org/W2139159445","https://openalex.org/W2158266834","https://openalex.org/W2166458835"],"related_works":["https://openalex.org/W2011835836","https://openalex.org/W2089872551","https://openalex.org/W1973836350","https://openalex.org/W2136036540","https://openalex.org/W2038509173","https://openalex.org/W2075125040","https://openalex.org/W2113488569","https://openalex.org/W3032468696","https://openalex.org/W2176905394","https://openalex.org/W2160899489"],"abstract_inverted_index":{"Major":[0],"Histocompatibility":[1],"Complex":[2],"(MHC),":[3],"peptide":[4],"and":[5,51,65,74],"T-Cell":[6],"Receptor":[7],"(TCR)":[8],"play":[9],"an":[10],"essential":[11],"role":[12],"of":[13,24,78,91],"adaptive":[14],"immune":[15],"responses.":[16],"Many":[17],"prediction":[18],"servers":[19],"are":[20],"available":[21],"for":[22,39,55,88],"identification":[23],"peptides":[25],"that":[26,83],"bind":[27],"to":[28,71],"MHC":[29],"class":[30],"I":[31],"molecules":[32],"but":[33],"often":[34],"lack":[35],"detailed":[36],"interacting":[37,53],"residues":[38],"analysing":[40],"MHC-peptide-TCR":[41],"interaction":[42],"mechanisms.":[43],"This":[44],"study":[45],"considers":[46],"both":[47,62],"the":[48,52,63,66,75,89],"interface":[49],"similarity":[50],"force":[54],"identifying":[56],"binding":[57,79],"models.":[58,80],"Our":[59],"model,":[60],"considering":[61],"MHC-peptide":[64],"peptide-TCR":[67],"interfaces,":[68],"is":[69,86],"able":[70],"provide":[72],"visualisation":[73],"biological":[76],"insights":[77],"We":[81],"believe":[82],"our":[84],"model":[85],"useful":[87],"development":[90],"peptide-based":[92],"vaccines.":[93]},"counts_by_year":[],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2016-06-24T00:00:00"}
