{"id":"https://openalex.org/W2009791743","doi":"https://doi.org/10.1186/1471-2105-7-s1-s3","title":"PepDist: A New Framework for Protein-Peptide Binding Prediction based on Learning Peptide Distance Functions","display_name":"PepDist: A New Framework for Protein-Peptide Binding Prediction based on Learning Peptide Distance Functions","publication_year":2006,"publication_date":"2006-03-01","ids":{"openalex":"https://openalex.org/W2009791743","doi":"https://doi.org/10.1186/1471-2105-7-s1-s3","mag":"2009791743","pmid":"https://pubmed.ncbi.nlm.nih.gov/16723006"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-7-s1-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-s1-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-S1-S3","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/10.1186/1471-2105-7-S1-S3","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5004268970","display_name":"Tomer Hertz","orcid":"https://orcid.org/0000-0002-0561-1578"},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Tomer Hertz","raw_affiliation_strings":["School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, 91904, Israel. tomboy@cs.huji.ac.il","School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel, 91904"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, 91904, Israel. tomboy@cs.huji.ac.il","institution_ids":["https://openalex.org/I197251160"]},{"raw_affiliation_string":"School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel, 91904","institution_ids":["https://openalex.org/I197251160"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022114369","display_name":"Chen Yanover","orcid":"https://orcid.org/0000-0003-3663-4286"},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Chen Yanover","raw_affiliation_strings":["School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel, 91904"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, The Hebrew University of Jerusalem, Jerusalem, Israel, 91904","institution_ids":["https://openalex.org/I197251160"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5004268970","https://openalex.org/A5022114369"],"corresponding_institution_ids":["https://openalex.org/I197251160"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.3182,"has_fulltext":true,"cited_by_count":37,"citation_normalized_percentile":{"value":0.87310233,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"7","issue":"S1","first_page":"S3","last_page":"S3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9689000248908997,"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":0.9689000248908997,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.017000000923871994,"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/T11103","display_name":"Antimicrobial Peptides and Activities","score":0.0032999999821186066,"subfield":{"id":"https://openalex.org/subfields/2404","display_name":"Microbiology"},"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/peptide","display_name":"Peptide","score":0.666179358959198},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5596942901611328},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5027046203613281},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"Protein function prediction","score":0.48283109068870544},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46420273184776306},{"id":"https://openalex.org/keywords/mhc-class-i","display_name":"MHC class I","score":0.46189653873443604},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.43798476457595825},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.37602752447128296},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.368768572807312},{"id":"https://openalex.org/keywords/major-histocompatibility-complex","display_name":"Major histocompatibility complex","score":0.2976483702659607},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.21617743372917175},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.19348928332328796},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.16706174612045288},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.1213032603263855},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11608046293258667}],"concepts":[{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.666179358959198},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5596942901611328},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5027046203613281},{"id":"https://openalex.org/C207060522","wikidata":"https://www.wikidata.org/wiki/Q7251473","display_name":"Protein function prediction","level":4,"score":0.48283109068870544},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46420273184776306},{"id":"https://openalex.org/C170627219","wikidata":"https://www.wikidata.org/wiki/Q13218497","display_name":"MHC class I","level":4,"score":0.46189653873443604},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.43798476457595825},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.37602752447128296},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.368768572807312},{"id":"https://openalex.org/C207936829","wikidata":"https://www.wikidata.org/wiki/Q423163","display_name":"Major histocompatibility complex","level":3,"score":0.2976483702659607},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.21617743372917175},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.19348928332328796},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.16706174612045288},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.1213032603263855},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11608046293258667},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"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":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005805","descriptor_name":"Genes, MHC Class I","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005805","descriptor_name":"Genes, MHC Class I","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005805","descriptor_name":"Genes, MHC Class I","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005805","descriptor_name":"Genes, MHC Class I","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"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":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015195","descriptor_name":"Drug Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":3,"locations":[{"id":"doi:10.1186/1471-2105-7-s1-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-s1-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-S1-S3","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:16723006","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16723006","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:europepmc.org:421077","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1810314","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-7-s1-s3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-s1-s3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-S1-S3","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":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2009791743.pdf","grobid_xml":"https://content.openalex.org/works/W2009791743.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1490155859","https://openalex.org/W1549641435","https://openalex.org/W1553313034","https://openalex.org/W1592870802","https://openalex.org/W1596382552","https://openalex.org/W1967435720","https://openalex.org/W1979715740","https://openalex.org/W1981276685","https://openalex.org/W1987704449","https://openalex.org/W1996529200","https://openalex.org/W2020564539","https://openalex.org/W2031574639","https://openalex.org/W2032210760","https://openalex.org/W2037263319","https://openalex.org/W2041553413","https://openalex.org/W2049633694","https://openalex.org/W2052321000","https://openalex.org/W2052875649","https://openalex.org/W2079542677","https://openalex.org/W2081400647","https://openalex.org/W2082296437","https://openalex.org/W2096100960","https://openalex.org/W2097398162","https://openalex.org/W2099485004","https://openalex.org/W2125014261","https://openalex.org/W2133566592","https://openalex.org/W2134089414","https://openalex.org/W2148687775","https://openalex.org/W2150383532","https://openalex.org/W2159404298","https://openalex.org/W2159583439","https://openalex.org/W2917210380","https://openalex.org/W2999905431","https://openalex.org/W4244952642"],"related_works":["https://openalex.org/W1526195401","https://openalex.org/W4313385292","https://openalex.org/W4388708026","https://openalex.org/W1759461029","https://openalex.org/W3134906029","https://openalex.org/W3108941781","https://openalex.org/W2126989399","https://openalex.org/W2372019020","https://openalex.org/W2961085424","https://openalex.org/W2086851734"],"abstract_inverted_index":{"BACKGROUND:":[0],"Many":[1],"different":[2,258],"aspects":[3],"of":[4,98,114,120,150,194,198,202,222,254,302,312,317,326],"cellular":[5],"signalling,":[6],"trafficking":[7],"and":[8,17,44,181,362],"targeting":[9],"mechanisms":[10],"are":[11,21,346],"mediated":[12],"by":[13,273],"interactions":[14],"between":[15],"proteins":[16,99,122,216,303,319],"peptides.":[18],"Representative":[19],"examples":[20],"MHC-peptide":[22],"complexes":[23],"in":[24,123,147,284],"the":[25,52,112,121,124,137,148,199,247,281,318,324],"immune":[26],"system.":[27],"Developing":[28],"computational":[29,237],"methods":[30],"for":[31,71,217,315],"protein-peptide":[32],"binding":[33,53,73,174,252],"prediction":[34,54,175,253,275,306],"is":[35,77,160,206,239,271],"therefore":[36],"an":[37,95,212,299],"important":[38],"task":[39],"with":[40,144,334,341],"applications":[41],"to":[42,87,110,118,129,156,171,235,256,348],"vaccine":[43],"drug":[45],"design.":[46],"METHODS:":[47],"Previous":[48],"learning":[49,80,142,164,293,309,340],"approaches":[50],"address":[51],"problem":[55,138,143],"using":[56,280],"traditional":[57],"margin":[58],"based":[59,78],"binary":[60,313],"classifiers.":[61],"In":[62,127,186,226],"this":[63,285],"paper":[64],"we":[65,85,135,154],"propose":[66,155],"PepDist:":[67],"a":[68,89,115,140,161,274,294,310],"novel":[69,116,204],"approach":[70,76,205],"predicting":[72],"affinity.":[74],"Our":[75],"on":[79,177,329],"peptide-peptide":[81,91,132],"distance":[82,92,105,133,163,296],"functions.":[83],"Moreover,":[84],"suggest":[86,291],"learn":[88,130,211],"single":[90,295],"function":[93,106,214,297],"over":[94,215,298],"entire":[96,300],"family":[97,301],"(e.g.":[100],"MHC":[101,178,182,259],"class":[102,179,183,260],"I).":[103],"This":[104,351],"can":[107,209,266],"be":[108,267,349,360],"used":[109],"compute":[111],"affinity":[113,213],"peptide":[117],"any":[119],"given":[125],"family.":[126],"order":[128],"these":[131,227],"functions,":[134],"formalize":[136],"as":[139],"semi-supervised":[141,162],"partial":[145],"information":[146,328,354],"form":[149],"equivalence":[151],"constraints.":[152],"Specifically,":[153],"use":[157],"DistBoost,":[158],"which":[159,218,250,265,277],"algorithm.":[165],"RESULTS:":[166],"We":[167,243,321],"compare":[168],"our":[169,190,203,229],"method":[170,191],"various":[172],"state-of-the-art":[173],"algorithms":[176],"I":[180,261],"II":[184],"datasets.":[185],"almost":[187],"all":[188,193],"cases,":[189,228],"outperforms":[192],"its":[195],"competitors.":[196],"One":[197],"major":[200],"advantages":[201],"that":[207,292,345,353],"it":[208],"also":[210,322,359],"only":[219],"small":[220],"amounts":[221],"labeled":[223],"peptides":[224,255,344,357],"exist.":[225],"method's":[230],"performance":[231],"gain,":[232],"when":[233],"compared":[234],"other":[236],"methods,":[238],"even":[240],"more":[241],"pronounced.":[242],"have":[244],"recently":[245],"uploaded":[246],"PepDist":[248],"webserver":[249,264],"provides":[251],"35":[257],"alleles.":[262],"The":[263,288],"found":[268],"at":[269],"http://www.pepdist.cs.huji.ac.il":[270],"powered":[272],"engine":[276],"was":[278],"trained":[279],"framework":[282],"presented":[283],"paper.":[286],"CONCLUSION:":[287],"results":[289],"obtained":[290],"achieves":[304],"higher":[305],"accuracy":[307],"than":[308,339],"set":[311],"classifiers":[314],"each":[316],"separately.":[320],"show":[323],"importance":[325],"obtaining":[327],"experimentally":[330],"determined":[331],"non-binders.":[332,350],"Learning":[333],"real":[335],"non-binders":[336],"generalizes":[337],"better":[338],"randomly":[342],"generated":[343],"assumed":[347],"suggests":[352],"about":[355],"non-binding":[356],"should":[358],"published":[361],"made":[363],"publicly":[364],"available.":[365]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}