{"id":"https://openalex.org/W3153214143","doi":"https://doi.org/10.1093/bib/bbab143","title":"IsAb: a computational protocol for antibody design","display_name":"IsAb: a computational protocol for antibody design","publication_year":2021,"publication_date":"2021-03-24","ids":{"openalex":"https://openalex.org/W3153214143","doi":"https://doi.org/10.1093/bib/bbab143","mag":"3153214143","pmid":"https://pubmed.ncbi.nlm.nih.gov/33876197"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab143","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab143","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579189","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065118063","display_name":"Tianjian Liang","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tianjian Liang","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061800367","display_name":"Hui Chen","orcid":"https://orcid.org/0000-0003-2866-7811"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hui Chen","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067607368","display_name":"Jiayi Yuan","orcid":"https://orcid.org/0009-0007-0121-4990"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiayi Yuan","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100612949","display_name":"Chen Jiang","orcid":"https://orcid.org/0000-0001-8336-6814"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chen Jiang","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066370219","display_name":"Yixuan Hao","orcid":null},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yixuan Hao","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101752595","display_name":"Yuanqiang Wang","orcid":"https://orcid.org/0000-0002-3024-2866"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Yuanqiang Wang","raw_affiliation_strings":["School of Pharmacy and Bioengineering, Chongqing University of Technology, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy and Bioengineering, Chongqing University of Technology, Pittsburgh, PA 15261, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076924374","display_name":"Zhiwei Feng","orcid":"https://orcid.org/0000-0001-6533-8932"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Zhiwei Feng","raw_affiliation_strings":["School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"School of Pharmacy, University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028011485","display_name":"Xiang\u2010Qun Xie","orcid":"https://orcid.org/0000-0002-6881-6175"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xiang-Qun Xie","raw_affiliation_strings":["Computational Drug Abuse Research and Computational Chemogenomics Screening Center at the University of Pittsburgh, Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"Computational Drug Abuse Research and Computational Chemogenomics Screening Center at the University of Pittsburgh, Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5028011485","https://openalex.org/A5076924374"],"corresponding_institution_ids":["https://openalex.org/I170201317"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.8104,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":{"value":0.84733738,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"22","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11016","display_name":"Monoclonal and Polyclonal Antibodies Research","score":1.0,"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":1.0,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9983000159263611,"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/T11124","display_name":"Protein purification and stability","score":0.9952999949455261,"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/in-silico","display_name":"In silico","score":0.6827986836433411},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6822957396507263},{"id":"https://openalex.org/keywords/antibody","display_name":"Antibody","score":0.5729064345359802},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.5664492845535278},{"id":"https://openalex.org/keywords/protocol","display_name":"Protocol (science)","score":0.5390031337738037},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5277959704399109},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1836203634738922},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.1263565719127655},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.08847516775131226}],"concepts":[{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6827986836433411},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6822957396507263},{"id":"https://openalex.org/C159654299","wikidata":"https://www.wikidata.org/wiki/Q79460","display_name":"Antibody","level":2,"score":0.5729064345359802},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.5664492845535278},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.5390031337738037},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5277959704399109},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1836203634738922},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.1263565719127655},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.08847516775131226},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C204787440","wikidata":"https://www.wikidata.org/wiki/Q188504","display_name":"Alternative medicine","level":2,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000072417","descriptor_name":"Protein Domains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000906","descriptor_name":"Antibodies","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000918","descriptor_name":"Antibody Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000918","descriptor_name":"Antibody Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000918","descriptor_name":"Antibody Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000936","descriptor_name":"Antigen-Antibody Complex","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001666","descriptor_name":"Binding Sites, Antibody","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001666","descriptor_name":"Binding Sites, Antibody","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001666","descriptor_name":"Binding Sites, Antibody","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"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":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017076","descriptor_name":"Computer-Aided Design","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018360","descriptor_name":"Crystallography, X-Ray","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018360","descriptor_name":"Crystallography, X-Ray","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018360","descriptor_name":"Crystallography, X-Ray","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":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D061026","descriptor_name":"Programmed Cell Death 1 Receptor","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D061067","descriptor_name":"Antibodies, Monoclonal, Humanized","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbab143","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab143","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33876197","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33876197","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8579189","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579189","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8579189","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8579189","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2408914377","display_name":null,"funder_award_id":"P30 DA035778A1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":78,"referenced_works":["https://openalex.org/W1956208665","https://openalex.org/W1969228371","https://openalex.org/W1972438493","https://openalex.org/W1980933072","https://openalex.org/W1985743545","https://openalex.org/W1992426410","https://openalex.org/W1996526198","https://openalex.org/W1999390565","https://openalex.org/W1999648327","https://openalex.org/W2000383223","https://openalex.org/W2000443388","https://openalex.org/W2007804411","https://openalex.org/W2008284898","https://openalex.org/W2013238066","https://openalex.org/W2019691413","https://openalex.org/W2027486315","https://openalex.org/W2033211519","https://openalex.org/W2036808217","https://openalex.org/W2048643046","https://openalex.org/W2058527555","https://openalex.org/W2067484689","https://openalex.org/W2071200955","https://openalex.org/W2074713036","https://openalex.org/W2075770210","https://openalex.org/W2083028331","https://openalex.org/W2095157453","https://openalex.org/W2110505462","https://openalex.org/W2112743424","https://openalex.org/W2115167726","https://openalex.org/W2117012297","https://openalex.org/W2121627241","https://openalex.org/W2126021740","https://openalex.org/W2132696400","https://openalex.org/W2136960636","https://openalex.org/W2139968777","https://openalex.org/W2142134255","https://openalex.org/W2142868265","https://openalex.org/W2145154167","https://openalex.org/W2147993766","https://openalex.org/W2150192011","https://openalex.org/W2150981663","https://openalex.org/W2158781610","https://openalex.org/W2166021114","https://openalex.org/W2166317516","https://openalex.org/W2166765429","https://openalex.org/W2171249995","https://openalex.org/W2323104785","https://openalex.org/W2404280981","https://openalex.org/W2409199570","https://openalex.org/W2509135402","https://openalex.org/W2516900679","https://openalex.org/W2530034556","https://openalex.org/W2568203951","https://openalex.org/W2572080171","https://openalex.org/W2579798392","https://openalex.org/W2586232813","https://openalex.org/W2602393840","https://openalex.org/W2801127413","https://openalex.org/W2801965704","https://openalex.org/W2811051657","https://openalex.org/W2886541183","https://openalex.org/W2915344963","https://openalex.org/W2918278359","https://openalex.org/W2919203345","https://openalex.org/W2923766093","https://openalex.org/W2953176058","https://openalex.org/W2954728343","https://openalex.org/W2974982237","https://openalex.org/W2999958881","https://openalex.org/W3018986165","https://openalex.org/W3027366962","https://openalex.org/W3045143182","https://openalex.org/W3092754129","https://openalex.org/W3093434265","https://openalex.org/W4246504300","https://openalex.org/W6760455621","https://openalex.org/W6774869425","https://openalex.org/W6779863343"],"related_works":["https://openalex.org/W2003194288","https://openalex.org/W2513589746","https://openalex.org/W2213189664","https://openalex.org/W2153919606","https://openalex.org/W2062254828","https://openalex.org/W4237480606","https://openalex.org/W2936968863","https://openalex.org/W1971792277","https://openalex.org/W4313128508","https://openalex.org/W2084707189"],"abstract_inverted_index":{"The":[0],"design":[1,40,48,87,100],"of":[2,10,31,38,72,77,84,123,144,209,232],"therapeutic":[3],"antibodies":[4,125,210],"has":[5],"attracted":[6],"a":[7,230,261,270],"large":[8],"amount":[9],"attention":[11],"over":[12],"the":[13,35,55,70,75,82,90,111,120,141,149,156,164,172,178,191,207,224,227],"years.":[14],"Antibodies":[15],"are":[16,41,59],"widely":[17],"used":[18,138,161,188,204,258],"to":[19,24,65,104,118,139,159,162,189,205,211,247,268],"treat":[20],"many":[21],"diseases":[22],"due":[23],"their":[25,214],"high":[26],"efficiency":[27],"and":[28,43,81,167,216,238],"low":[29],"risk":[30],"adverse":[32],"events.":[33],"However,":[34],"experimental":[36],"methods":[37],"antibody":[39,47,78,86,99,108,236],"time-consuming":[42],"expensive.":[44],"Although":[45],"computational":[46,198],"techniques":[49],"have":[50],"had":[51],"significant":[52],"advances":[53],"in":[54,97,182,226,245],"past":[56],"years,":[57],"there":[58,127],"still":[60],"some":[61],"challenges":[62],"that":[63],"need":[64],"be":[66,116,137,160,187,203,220],"solved,":[67],"such":[68],"as":[69,265],"flexibility":[71],"antigen":[73],"structure,":[74],"lack":[76],"structural":[79,130],"data":[80,244],"absence":[83],"standard":[85],"protocol.":[88,250],"In":[89],"present":[91],"work,":[92],"we":[93,234,257],"elaborated":[94],"on":[95,177],"an":[96,145,266],"silico":[98,183],"protocol":[101,201],"for":[102,171],"users":[103],"easily":[105],"perform":[106],"computer-aided":[107],"design.":[109],"First,":[110],"Rosetta":[112],"web":[113],"server":[114],"will":[115,136,186,202,219],"applied":[117,170],"generate":[119],"3D":[121],"structure":[122,208],"query":[124],"if":[126],"is":[128,152,155,169],"no":[129],"information":[131,151],"available.":[132],"Then,":[133],"two-step":[134],"docking":[135],"identify":[140],"binding":[142,150,180],"pose":[143],"antibody-antigen":[146],"complex":[147],"when":[148],"unknown.":[153],"ClusPro":[154],"first":[157],"method":[158],"conduct":[163],"global":[165],"docking,":[166],"SnugDock":[168],"local":[173],"docking.":[174],"Sequentially,":[175],"based":[176],"predicted":[179],"poses,":[181],"alanine":[184],"scanning":[185],"predict":[190],"potential":[192],"hotspots":[193],"(or":[194],"key":[195],"residues).":[196],"Finally,":[197],"affinity":[199,215],"maturation":[200],"modify":[206],"theoretically":[212],"increase":[213],"stability,":[217],"which":[218],"further":[221,252],"validated":[222],"by":[223],"bioassays":[225],"future.":[228],"As":[229],"proof":[231],"concept,":[233],"redesigned":[235],"D44.1":[237],"compared":[239],"it":[240],"with":[241],"previously":[242],"reported":[243],"order":[246],"validate":[248],"IsAb":[249],"To":[251],"illustrate":[253],"our":[254],"proposed":[255],"protocol,":[256],"cemiplimab":[259],"antibody,":[260],"PD-1":[262],"checkpoint":[263],"inhibitor,":[264],"example":[267],"showcase":[269],"step-by-step":[271],"tutorial.":[272]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
