{"id":"https://openalex.org/W4394576200","doi":"https://doi.org/10.3389/fbinf.2023.1286883","title":"Prediction of polyspecificity from antibody sequence data by machine learning","display_name":"Prediction of polyspecificity from antibody sequence data by machine learning","publication_year":2024,"publication_date":"2024-04-08","ids":{"openalex":"https://openalex.org/W4394576200","doi":"https://doi.org/10.3389/fbinf.2023.1286883","pmid":"https://pubmed.ncbi.nlm.nih.gov/38651055"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2023.1286883","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1286883","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1286883/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1286883/pdf?isPublishedV2=False","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017348456","display_name":"Szabolcs \u00c9li\u00e1s","orcid":"https://orcid.org/0000-0003-0223-1251"},"institutions":[{"id":"https://openalex.org/I4210094361","display_name":"Roche Pharma AG (Germany)","ror":"https://ror.org/00sh68184","country_code":"DE","type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4210094361"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Szabolcs \u00c9li\u00e1s","raw_affiliation_strings":["Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany","institution_ids":["https://openalex.org/I4210094361"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083106620","display_name":"Clemens Wrzodek","orcid":"https://orcid.org/0000-0003-4995-780X"},"institutions":[{"id":"https://openalex.org/I4210094361","display_name":"Roche Pharma AG (Germany)","ror":"https://ror.org/00sh68184","country_code":"DE","type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4210094361"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Clemens Wrzodek","raw_affiliation_strings":["Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany","institution_ids":["https://openalex.org/I4210094361"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015572211","display_name":"Charlotte M. Deane","orcid":"https://orcid.org/0000-0003-1388-2252"},"institutions":[{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Charlotte M. Deane","raw_affiliation_strings":["Oxford Protein Informatics Group, Department of Statistics, University of Oxford, Oxford, United Kingdom"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Oxford Protein Informatics Group, Department of Statistics, University of Oxford, Oxford, United Kingdom","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036854363","display_name":"Alain C. Tissot","orcid":null},"institutions":[{"id":"https://openalex.org/I4210094361","display_name":"Roche Pharma AG (Germany)","ror":"https://ror.org/00sh68184","country_code":"DE","type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4210094361"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Alain C. Tissot","raw_affiliation_strings":["Roche Pharmaceutical Research and Early Development, Large Molecule Research, Roche Innovation Center Munich, Penzberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roche Pharmaceutical Research and Early Development, Large Molecule Research, Roche Innovation Center Munich, Penzberg, Germany","institution_ids":["https://openalex.org/I4210094361"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012853684","display_name":"Stefan Klostermann","orcid":"https://orcid.org/0000-0002-2092-7124"},"institutions":[{"id":"https://openalex.org/I4210094361","display_name":"Roche Pharma AG (Germany)","ror":"https://ror.org/00sh68184","country_code":"DE","type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4210094361"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Stefan Klostermann","raw_affiliation_strings":["Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roche Pharma Research and Early Development Informatics, Roche Innovation Center Munich, Penzberg, Germany","institution_ids":["https://openalex.org/I4210094361"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068715727","display_name":"Francesca Ros","orcid":null},"institutions":[{"id":"https://openalex.org/I4210094361","display_name":"Roche Pharma AG (Germany)","ror":"https://ror.org/00sh68184","country_code":"DE","type":"company","lineage":["https://openalex.org/I118019719","https://openalex.org/I4210094361"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Francesca Ros","raw_affiliation_strings":["Roche Pharmaceutical Research and Early Development, Large Molecule Research, Roche Innovation Center Munich, Penzberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Roche Pharmaceutical Research and Early Development, Large Molecule Research, Roche Innovation Center Munich, Penzberg, Germany","institution_ids":["https://openalex.org/I4210094361"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5017348456","https://openalex.org/A5068715727"],"corresponding_institution_ids":["https://openalex.org/I4210094361"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":3.0099,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.91009096,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"3","issue":null,"first_page":"1286883","last_page":"1286883"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":0.9998999834060669,"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/T11124","display_name":"Protein purification and stability","score":0.9987000226974487,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9947999715805054,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/antibody","display_name":"Antibody","score":0.6715860366821289},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5851460695266724},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5443839430809021},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5416705012321472},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.4898242652416229},{"id":"https://openalex.org/keywords/training-set","display_name":"Training set","score":0.47725817561149597},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4219169616699219},{"id":"https://openalex.org/keywords/immunization","display_name":"Immunization","score":0.4152422249317169},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.39865997433662415},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.26789045333862305},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2636123597621918},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.0903908908367157}],"concepts":[{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.6715860366821289},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5851460695266724},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5443839430809021},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5416705012321472},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.4898242652416229},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.47725817561149597},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4219169616699219},{"id":"https://openalex.org/C2780801004","wikidata":"https://www.wikidata.org/wiki/Q1415366","display_name":"Immunization","level":3,"score":0.4152422249317169},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.39865997433662415},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.26789045333862305},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2636123597621918},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0903908908367157},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3389/fbinf.2023.1286883","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1286883","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1286883/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38651055","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38651055","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11033685","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11033685","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11033685/pdf/fbinf-03-1286883.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Front Bioinform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:82c207e452cf49e4b1f72cfe95d982e4","is_oa":true,"landing_page_url":"https://doaj.org/article/82c207e452cf49e4b1f72cfe95d982e4","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":"Frontiers in Bioinformatics, Vol 3 (2024)","raw_type":"article"},{"id":"pmh:oai:ora.ox.ac.uk:uuid:a284ec6c-b6f7-4af5-becf-f06412f6c3d5","is_oa":true,"landing_page_url":"https://ora.ox.ac.uk/objects/uuid:a284ec6c-b6f7-4af5-becf-f06412f6c3d5","pdf_url":null,"source":{"id":"https://openalex.org/S4306402636","display_name":"Oxford University Research Archive (ORA) (University of Oxford)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I40120149","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/I40120149"],"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":"Jisc Publications Router","raw_type":"Journal article"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2023.1286883","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2023.1286883","pdf_url":"https://www.frontiersin.org/articles/10.3389/fbinf.2023.1286883/pdf?isPublishedV2=False","source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.6000000238418579}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4394576200.pdf"},"referenced_works_count":68,"referenced_works":["https://openalex.org/W153255758","https://openalex.org/W327952328","https://openalex.org/W1522301498","https://openalex.org/W1567888165","https://openalex.org/W1872459230","https://openalex.org/W1969650153","https://openalex.org/W1969821102","https://openalex.org/W1978090240","https://openalex.org/W1979653499","https://openalex.org/W1981981290","https://openalex.org/W1990498887","https://openalex.org/W1994023644","https://openalex.org/W1994133027","https://openalex.org/W2010122910","https://openalex.org/W2015712944","https://openalex.org/W2017561540","https://openalex.org/W2018115736","https://openalex.org/W2035146707","https://openalex.org/W2043338013","https://openalex.org/W2044098624","https://openalex.org/W2051792363","https://openalex.org/W2054828666","https://openalex.org/W2055416932","https://openalex.org/W2058205079","https://openalex.org/W2060483771","https://openalex.org/W2064790714","https://openalex.org/W2067608620","https://openalex.org/W2073799384","https://openalex.org/W2074614649","https://openalex.org/W2076198413","https://openalex.org/W2082947088","https://openalex.org/W2084880363","https://openalex.org/W2085568342","https://openalex.org/W2093949680","https://openalex.org/W2102440675","https://openalex.org/W2110065044","https://openalex.org/W2128904113","https://openalex.org/W2157107905","https://openalex.org/W2167252574","https://openalex.org/W2167745909","https://openalex.org/W2167980959","https://openalex.org/W2171742422","https://openalex.org/W2188526495","https://openalex.org/W2497383353","https://openalex.org/W2558801358","https://openalex.org/W2578029714","https://openalex.org/W2746147977","https://openalex.org/W2759933576","https://openalex.org/W2774014537","https://openalex.org/W2806347806","https://openalex.org/W2889326414","https://openalex.org/W2937842481","https://openalex.org/W2949247256","https://openalex.org/W2955748570","https://openalex.org/W2969476445","https://openalex.org/W2970285352","https://openalex.org/W2975542828","https://openalex.org/W2994706149","https://openalex.org/W3022788428","https://openalex.org/W3025261372","https://openalex.org/W3110552663","https://openalex.org/W4246504300","https://openalex.org/W4283744078","https://openalex.org/W4311168514","https://openalex.org/W4384575937","https://openalex.org/W4385880489","https://openalex.org/W4386423687","https://openalex.org/W6606303611"],"related_works":["https://openalex.org/W2140742898","https://openalex.org/W2051711728","https://openalex.org/W2564434667","https://openalex.org/W861592401","https://openalex.org/W2316023112","https://openalex.org/W2414167202","https://openalex.org/W1495816883","https://openalex.org/W2961085424","https://openalex.org/W2351472829","https://openalex.org/W1509853645"],"abstract_inverted_index":{"Antibodies":[0],"are":[1],"generated":[2],"with":[3],"great":[4],"diversity":[5,25],"in":[6,9,61,76],"nature":[7],"resulting":[8],"a":[10,18,32,77,91,110,130,159],"set":[11,134],"of":[12,23,35,84,97,129,139,153,170],"molecules,":[13],"each":[14],"optimized":[15],"to":[16,45,49,63,70,94,162,175],"bind":[17,57],"specific":[19],"target.":[20],"Taking":[21],"advantage":[22],"their":[24,64],"and":[26,52,73,137],"specificity,":[27],"antibodies":[28,43,55,98,114],"make":[29],"up":[30],"for":[31,80,112,120,135],"large":[33,131],"part":[34],"recently":[36],"developed":[37],"biologic":[38],"drugs.":[39],"For":[40],"therapeutic":[41,78,176],"use":[42],"need":[44],"fulfill":[46],"several":[47],"criteria":[48],"be":[50],"safe":[51],"efficient.":[53],"Polyspecific":[54],"can":[56,68],"structurally":[58],"unrelated":[59],"molecules":[60],"addition":[62],"main":[65],"target,":[66],"which":[67],"lead":[69],"side":[71],"effects":[72],"decreased":[74],"efficacy":[75],"setting,":[79],"example":[81],"via":[82],"reduction":[83],"effective":[85],"drug":[86],"levels.":[87],"Therefore,":[88],"we":[89],"created":[90],"neural-network-based":[92],"model":[93],"predict":[95],"polyspecificity":[96,148,163],"using":[99],"the":[100,140,151],"heavy":[101],"chain":[102],"variable":[103],"region":[104],"sequence":[105],"as":[106],"input.":[107],"We":[108,142],"devised":[109],"strategy":[111],"enriching":[113],"from":[115],"an":[116],"immunization":[117],"campaign":[118],"either":[119],"antigen-specific":[121],"or":[122],"polyspecific":[123],"binding":[124],"properties,":[125],"followed":[126],"by":[127,149],"generation":[128],"sequencing":[132],"data":[133],"training":[136],"cross-validation":[138],"model.":[141,155],"identified":[143],"important":[144],"physico-chemical":[145],"features":[146],"influencing":[147],"investigating":[150],"behaviour":[152],"this":[154],"This":[156],"work":[157],"is":[158],"machine-learning-based":[160],"approach":[161],"prediction":[164],"and,":[165],"besides":[166],"increasing":[167],"our":[168],"understanding":[169],"polyspecificity,":[171],"it":[172],"might":[173],"contribute":[174],"antibody":[177],"development.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2}],"updated_date":"2026-05-26T13:28:51.108037","created_date":"2025-10-10T00:00:00"}
