{"id":"https://openalex.org/W4409473660","doi":"https://doi.org/10.1371/journal.pcbi.1012964","title":"Viral escape-inspired framework for structure-guided dual bait protein biosensor design","display_name":"Viral escape-inspired framework for structure-guided dual bait protein biosensor design","publication_year":2025,"publication_date":"2025-04-15","ids":{"openalex":"https://openalex.org/W4409473660","doi":"https://doi.org/10.1371/journal.pcbi.1012964","pmid":"https://pubmed.ncbi.nlm.nih.gov/40233103"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1012964","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012964","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1012964","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5099162106","display_name":"Yee Chuen Teoh","orcid":null},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yee Chuen Teoh","raw_affiliation_strings":["Department of Computer Science, Iowa State University, Ames, Iowa, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Iowa State University, Ames, Iowa, United States of America","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082490736","display_name":"Mohammed Sakib Noor","orcid":null},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammed Sakib Noor","raw_affiliation_strings":["Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004969959","display_name":"Sina Aghakhani","orcid":"https://orcid.org/0000-0002-9476-548X"},"institutions":[{"id":"https://openalex.org/I115475287","display_name":"Oklahoma State University","ror":"https://ror.org/01g9vbr38","country_code":"US","type":"education","lineage":["https://openalex.org/I115475287"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sina Aghakhani","raw_affiliation_strings":["School of Industrial Engineering and Management, Oklahoma State University, Stillwater, Oklahoma, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-9476-548X","affiliations":[{"raw_affiliation_string":"School of Industrial Engineering and Management, Oklahoma State University, Stillwater, Oklahoma, United States of America","institution_ids":["https://openalex.org/I115475287"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063894251","display_name":"Jack Girton","orcid":null},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jack Girton","raw_affiliation_strings":["Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028485114","display_name":"Guiping Hu","orcid":"https://orcid.org/0000-0001-8392-8442"},"institutions":[{"id":"https://openalex.org/I115475287","display_name":"Oklahoma State University","ror":"https://ror.org/01g9vbr38","country_code":"US","type":"education","lineage":["https://openalex.org/I115475287"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Guiping Hu","raw_affiliation_strings":["School of Industrial Engineering and Management, Oklahoma State University, Stillwater, Oklahoma, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Industrial Engineering and Management, Oklahoma State University, Stillwater, Oklahoma, United States of America","institution_ids":["https://openalex.org/I115475287"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5102727904","display_name":"Ratul Chowdhury","orcid":"https://orcid.org/0000-0003-4522-6911"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ratul Chowdhury","raw_affiliation_strings":["Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America","Nanovaccine Institute, Iowa State University, Ames, Iowa, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-4522-6911","affiliations":[{"raw_affiliation_string":"Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa, United States of America","institution_ids":["https://openalex.org/I173911158"]},{"raw_affiliation_string":"Nanovaccine Institute, Iowa State University, Ames, Iowa, United States of America","institution_ids":["https://openalex.org/I173911158"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.0166,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.84388804,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"biblio":{"volume":"21","issue":"4","first_page":"e1012964","last_page":"e1012964"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9979000091552734,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10878","display_name":"CRISPR and Genetic Engineering","score":0.9901999831199646,"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/T11663","display_name":"Viral Infectious Diseases and Gene Expression in Insects","score":0.9776999950408936,"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/computational-biology","display_name":"Computational biology","score":0.702262282371521},{"id":"https://openalex.org/keywords/point-mutation","display_name":"Point mutation","score":0.5202727913856506},{"id":"https://openalex.org/keywords/biosensor","display_name":"Biosensor","score":0.5153784155845642},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5005824565887451},{"id":"https://openalex.org/keywords/protein-engineering","display_name":"Protein engineering","score":0.4576922357082367},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.43214157223701477},{"id":"https://openalex.org/keywords/binding-site","display_name":"Binding site","score":0.43015390634536743},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.388370156288147},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.26974883675575256},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22292691469192505},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.14434781670570374}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.702262282371521},{"id":"https://openalex.org/C176944494","wikidata":"https://www.wikidata.org/wiki/Q1415380","display_name":"Point mutation","level":4,"score":0.5202727913856506},{"id":"https://openalex.org/C160756335","wikidata":"https://www.wikidata.org/wiki/Q669391","display_name":"Biosensor","level":2,"score":0.5153784155845642},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5005824565887451},{"id":"https://openalex.org/C147816474","wikidata":"https://www.wikidata.org/wiki/Q169525","display_name":"Protein engineering","level":3,"score":0.4576922357082367},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.43214157223701477},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.43015390634536743},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.388370156288147},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.26974883675575256},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22292691469192505},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.14434781670570374},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000085962","descriptor_name":"Angiotensin-Converting Enzyme 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000085962","descriptor_name":"Angiotensin-Converting Enzyme 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000085962","descriptor_name":"Angiotensin-Converting Enzyme 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000085962","descriptor_name":"Angiotensin-Converting Enzyme 2","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"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":"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":"D015374","descriptor_name":"Biosensing Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015374","descriptor_name":"Biosensing Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015374","descriptor_name":"Biosensing Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D015374","descriptor_name":"Biosensing Techniques","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017354","descriptor_name":"Point Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017354","descriptor_name":"Point Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017354","descriptor_name":"Point Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017354","descriptor_name":"Point Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057134","descriptor_name":"Antibodies, Neutralizing","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D057134","descriptor_name":"Antibodies, Neutralizing","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D057134","descriptor_name":"Antibodies, Neutralizing","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D057134","descriptor_name":"Antibodies, Neutralizing","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1012964","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012964","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:40233103","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40233103","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:a7b5685f75574342bac780c158656385","is_oa":true,"landing_page_url":"https://doaj.org/article/a7b5685f75574342bac780c158656385","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":"PLoS Computational Biology, Vol 21, Iss 4, p e1012964 (2025)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:10831484","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12021294","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1012964","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1012964","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G811099882","display_name":null,"funder_award_id":"DQDBM7FGJPC5","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320311090","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":67,"referenced_works":["https://openalex.org/W1515641485","https://openalex.org/W1975304761","https://openalex.org/W2007930753","https://openalex.org/W2016007765","https://openalex.org/W2110633986","https://openalex.org/W2117480021","https://openalex.org/W2127765989","https://openalex.org/W2151581834","https://openalex.org/W2153983456","https://openalex.org/W2154277781","https://openalex.org/W2298953604","https://openalex.org/W2380358550","https://openalex.org/W2461540377","https://openalex.org/W2753885795","https://openalex.org/W2811051657","https://openalex.org/W2890075759","https://openalex.org/W2934940446","https://openalex.org/W2969411699","https://openalex.org/W2971405760","https://openalex.org/W2980372463","https://openalex.org/W2992752586","https://openalex.org/W3008394341","https://openalex.org/W3009520285","https://openalex.org/W3014067025","https://openalex.org/W3048714202","https://openalex.org/W3082291329","https://openalex.org/W3085879587","https://openalex.org/W3087275685","https://openalex.org/W3103451822","https://openalex.org/W3121000782","https://openalex.org/W3127277789","https://openalex.org/W3127852352","https://openalex.org/W3134272626","https://openalex.org/W3163564325","https://openalex.org/W3165479483","https://openalex.org/W3169503674","https://openalex.org/W3177828909","https://openalex.org/W3184973768","https://openalex.org/W3191027841","https://openalex.org/W3202850396","https://openalex.org/W3206432019","https://openalex.org/W4211176076","https://openalex.org/W4214863616","https://openalex.org/W4220777055","https://openalex.org/W4221109380","https://openalex.org/W4224950216","https://openalex.org/W4225691034","https://openalex.org/W4226229183","https://openalex.org/W4226443473","https://openalex.org/W4229445171","https://openalex.org/W4283158586","https://openalex.org/W4283740317","https://openalex.org/W4291016471","https://openalex.org/W4295777530","https://openalex.org/W4296032638","https://openalex.org/W4296035370","https://openalex.org/W4300861364","https://openalex.org/W4322621376","https://openalex.org/W4327550249","https://openalex.org/W4361205581","https://openalex.org/W4387540805","https://openalex.org/W4389003406","https://openalex.org/W4390740562","https://openalex.org/W4396896874","https://openalex.org/W4398147734","https://openalex.org/W6677594697","https://openalex.org/W6795772368"],"related_works":["https://openalex.org/W2550943714","https://openalex.org/W3212350425","https://openalex.org/W2388007221","https://openalex.org/W2511508046","https://openalex.org/W1974452506","https://openalex.org/W2363458739","https://openalex.org/W2385244308","https://openalex.org/W2028961943","https://openalex.org/W2364777039","https://openalex.org/W2375287167"],"abstract_inverted_index":{"A":[0],"generalizable":[1],"computational":[2,194],"platform,":[3],"CTRL-V":[4,105,231],"(Computational":[5],"TRacking":[6],"of":[7,27,111,157,165,230,236],"Likely":[8],"Variants),":[9],"is":[10],"introduced":[11],"to":[12,44,49,81,132,159,191,219],"design":[13,77,177,204],"selective":[14],"binding":[15,24,55,65,69],"(dual":[16],"bait)":[17],"biosensor":[18,39,203,249],"proteins.":[19],"The":[20,179],"iteratively":[21,42],"evolving":[22],"receptor":[23],"domain":[25],"(RBD)":[26],"SARS-CoV-2":[28,88],"spike":[29],"protein":[30,176],"has":[31,41],"been":[32],"construed":[33],"as":[34,96,187,206],"a":[35,193,234],"model":[36],"dual":[37,201],"bait":[38,202],"which":[40,232],"evolved":[43],"distinguish":[45],"and":[46,53,127,223,243],"selectively":[47,220],"bind":[48,221],"human":[50],"entry":[51],"receptors":[52],"avoid":[54],"neutralizing":[56],"antibodies.":[57],"Spike":[58],"RBD":[59],"prioritizes":[60],"mutations":[61,90,115],"that":[62,196,216],"reduce":[63],"antibody":[64,103],"while":[66],"enhancing/":[67],"retaining":[68],"with":[70],"the":[71,85,122,133,161],"ACE2":[72],"receptor.":[73],"CTRL-V's":[74],"through":[75],"iterative":[76],"cycles":[78],"was":[79,185],"shown":[80,145],"pinpoint":[82],"20%":[83],"(of":[84],"39)":[86],"reported":[87],"point":[89,114],"across":[91],"30":[92],"circulating,":[93],"infective":[94],"strains":[95],"responsible":[97],"for":[98,163,174,200,247],"immune":[99],"escape":[100,134,140,183],"from":[101],"commercial":[102],"LY-CoV1404.":[104],"successfully":[106],"identifies":[107],"~70%":[108],"(five":[109],"out":[110],"seven)":[112],"single":[113],"(371F,":[116],"373P,":[117],"440K,":[118],"445H,":[119],"456L)":[120],"in":[121,147,188,213],"latest":[123],"circulating":[124],"KP.2":[125],"variant":[126,141],"offers":[128],"detailed":[129],"structural":[130],"insights":[131],"mechanism.":[135],"While":[136],"other":[137,175],"data-driven":[138],"viral":[139,151,182],"predictor":[142],"tools":[143],"have":[144],"promise":[146],"predicting":[148],"potential":[149],"future":[150],"variants,":[152],"they":[153,170],"require":[154],"massive":[155],"amounts":[156],"data":[158,184],"bypass":[160],"need":[162],"physics":[164],"explicit":[166],"biochemical":[167],"interactions.":[168],"Consequently,":[169],"cannot":[171],"be":[172,198],"generalized":[173,199],"applications.":[178],"publicly":[180],"availably":[181],"leveraged":[186],"vivo":[189],"anchors":[190],"streamline":[192],"workflow":[195],"can":[197],"tasks":[205],"exemplified":[207],"by":[208,241],"identifying":[209],"key":[210],"mutational":[211],"loci":[212],"Raf":[214],"kinase":[215],"enables":[217],"it":[218],"Ras":[222],"Rap1a":[224],"GTP.":[225],"We":[226],"demonstrate":[227],"three":[228],"versions":[229],"use":[233],"combination":[235],"integer":[237],"optimization,":[238],"stochastic":[239],"sampling":[240],"PyRosetta,":[242],"deep":[244],"learning-based":[245],"ProteinMPNN":[246],"structure-guided":[248],"design.":[250]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-13T07:54:00.901334","created_date":"2025-10-10T00:00:00"}
