{"id":"https://openalex.org/W3156714702","doi":"https://doi.org/10.1093/bib/bbab107","title":"New framework for recombination and adaptive evolution analysis with application to the novel coronavirus SARS-CoV-2","display_name":"New framework for recombination and adaptive evolution analysis with application to the novel coronavirus SARS-CoV-2","publication_year":2021,"publication_date":"2021-03-12","ids":{"openalex":"https://openalex.org/W3156714702","doi":"https://doi.org/10.1093/bib/bbab107","mag":"3156714702","pmid":"https://pubmed.ncbi.nlm.nih.gov/33885735"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab107","pdf_url":"https://academic.oup.com/bib/article-pdf/22/5/bbab107/40261610/bbab107.pdf","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":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/22/5/bbab107/40261610/bbab107.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034963415","display_name":"Yinghan Wang","orcid":"https://orcid.org/0000-0001-7002-3097"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yinghan Wang","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101850193","display_name":"Jinfeng Zeng","orcid":"https://orcid.org/0000-0002-8280-2618"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinfeng Zeng","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100458222","display_name":"Chi Zhang","orcid":"https://orcid.org/0000-0003-0501-5909"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chi Zhang","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100317633","display_name":"Cai Chen","orcid":"https://orcid.org/0000-0002-3796-1070"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cai Chen","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066380667","display_name":"Zekai Qiu","orcid":null},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zekai Qiu","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081120608","display_name":"Jiali Pang","orcid":null},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiali Pang","raw_affiliation_strings":["School of Life Sciences, Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Life Sciences, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026259702","display_name":"Yutian Xu","orcid":"https://orcid.org/0000-0003-4293-3995"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yutian Xu","raw_affiliation_strings":["School of Intelligent Systems Engineering, Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Intelligent Systems Engineering, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113942612","display_name":"Zhi-Qi Dong","orcid":null},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhiqi Dong","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032797485","display_name":"Yanxin Song","orcid":"https://orcid.org/0000-0002-5938-7807"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yanxin Song","raw_affiliation_strings":["Lingnan College, Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"Lingnan College, Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009045546","display_name":"Weiying Liu","orcid":"https://orcid.org/0000-0001-5152-8663"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Weiying Liu","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063052487","display_name":"Peipei Dong","orcid":"https://orcid.org/0000-0002-0669-3667"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Peipei Dong","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035678484","display_name":"Litao Sun","orcid":"https://orcid.org/0000-0002-8415-989X"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Litao Sun","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039345848","display_name":"Yao-Qing Chen","orcid":"https://orcid.org/0000-0002-4659-1550"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yao-Qing Chen","raw_affiliation_strings":["School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090474253","display_name":"Yuelong Shu","orcid":"https://orcid.org/0000-0001-6151-5540"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yuelong Shu","raw_affiliation_strings":["Key Laboratory of Tropical Disease Control (Sun Yat-sen University), Ministry of Education, China","School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Tropical Disease Control (Sun Yat-sen University), Ministry of Education, China","institution_ids":["https://openalex.org/I157773358"]},{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051657705","display_name":"Xiangjun Du","orcid":"https://orcid.org/0000-0001-8184-8430"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiangjun Du","raw_affiliation_strings":["Key Laboratory of Tropical Disease Control (Sun Yat-sen University), Ministry of Education, China","School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Tropical Disease Control (Sun Yat-sen University), Ministry of Education, China","institution_ids":["https://openalex.org/I157773358"]},{"raw_affiliation_string":"School of Public Health (Shenzhen), Sun Yat-sen University, Guangzhou, China","institution_ids":["https://openalex.org/I157773358"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":15,"corresponding_author_ids":["https://openalex.org/A5051657705","https://openalex.org/A5090474253"],"corresponding_institution_ids":["https://openalex.org/I157773358"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.65,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.71451634,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":98},"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/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9995999932289124,"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":0.9995999932289124,"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/T11112","display_name":"Viral Infections and Immunology Research","score":0.9894000291824341,"subfield":{"id":"https://openalex.org/subfields/2705","display_name":"Cardiology and Cardiovascular Medicine"},"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/T10976","display_name":"Viral gastroenteritis research and epidemiology","score":0.9868000149726868,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.8268479704856873},{"id":"https://openalex.org/keywords/severe-acute-respiratory-syndrome-coronavirus-2","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","score":0.8039475679397583},{"id":"https://openalex.org/keywords/recombination","display_name":"Recombination","score":0.7400780320167542},{"id":"https://openalex.org/keywords/2019-20-coronavirus-outbreak","display_name":"2019-20 coronavirus outbreak","score":0.7282244563102722},{"id":"https://openalex.org/keywords/coronavirus","display_name":"Coronavirus","score":0.691611647605896},{"id":"https://openalex.org/keywords/betacoronavirus","display_name":"Betacoronavirus","score":0.5404423475265503},{"id":"https://openalex.org/keywords/coronavirus-infections","display_name":"Coronavirus Infections","score":0.4833352267742157},{"id":"https://openalex.org/keywords/severe-acute-respiratory-syndrome-coronavirus","display_name":"Severe acute respiratory syndrome coronavirus","score":0.4818592965602875},{"id":"https://openalex.org/keywords/sars-virus","display_name":"Sars virus","score":0.47089675068855286},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.4397720396518707},{"id":"https://openalex.org/keywords/pandemic","display_name":"Pandemic","score":0.43582743406295776},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43332332372665405},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.431113064289093},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35693618655204773},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.32904380559921265},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29497820138931274},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.17456591129302979},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15274396538734436},{"id":"https://openalex.org/keywords/infectious-disease","display_name":"Infectious disease (medical specialty)","score":0.052973151206970215}],"concepts":[{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.8268479704856873},{"id":"https://openalex.org/C3007834351","wikidata":"https://www.wikidata.org/wiki/Q82069695","display_name":"Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)","level":5,"score":0.8039475679397583},{"id":"https://openalex.org/C156695909","wikidata":"https://www.wikidata.org/wiki/Q3373825","display_name":"Recombination","level":3,"score":0.7400780320167542},{"id":"https://openalex.org/C3006700255","wikidata":"https://www.wikidata.org/wiki/Q81068910","display_name":"2019-20 coronavirus outbreak","level":3,"score":0.7282244563102722},{"id":"https://openalex.org/C2777648638","wikidata":"https://www.wikidata.org/wiki/Q57751738","display_name":"Coronavirus","level":5,"score":0.691611647605896},{"id":"https://openalex.org/C2778137277","wikidata":"https://www.wikidata.org/wiki/Q16532287","display_name":"Betacoronavirus","level":5,"score":0.5404423475265503},{"id":"https://openalex.org/C2909376813","wikidata":"https://www.wikidata.org/wiki/Q57751738","display_name":"Coronavirus Infections","level":5,"score":0.4833352267742157},{"id":"https://openalex.org/C2910188402","wikidata":"https://www.wikidata.org/wiki/Q85438966","display_name":"Severe acute respiratory syndrome coronavirus","level":5,"score":0.4818592965602875},{"id":"https://openalex.org/C3020799909","wikidata":"https://www.wikidata.org/wiki/Q85438966","display_name":"Sars virus","level":5,"score":0.47089675068855286},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.4397720396518707},{"id":"https://openalex.org/C89623803","wikidata":"https://www.wikidata.org/wiki/Q12184","display_name":"Pandemic","level":5,"score":0.43582743406295776},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43332332372665405},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.431113064289093},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35693618655204773},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.32904380559921265},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29497820138931274},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.17456591129302979},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15274396538734436},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.052973151206970215},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C116675565","wikidata":"https://www.wikidata.org/wiki/Q3241045","display_name":"Outbreak","level":2,"score":0.0},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0}],"mesh":[{"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":"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":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011995","descriptor_name":"Recombination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbab107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab107","pdf_url":"https://academic.oup.com/bib/article-pdf/22/5/bbab107/40261610/bbab107.pdf","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:33885735","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33885735","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:8083196","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8083196","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":"doi:10.1093/bib/bbab107","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbab107","pdf_url":"https://academic.oup.com/bib/article-pdf/22/5/bbab107/40261610/bbab107.pdf","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"},"sustainable_development_goals":[{"score":0.7300000190734863,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1206357324","display_name":null,"funder_award_id":"2019B02","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G4725848101","display_name":null,"funder_award_id":"2020YFC0840900","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G808237912","display_name":null,"funder_award_id":"2020YFC","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"}],"funders":[{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3156714702.pdf","grobid_xml":"https://content.openalex.org/works/W3156714702.grobid-xml"},"referenced_works_count":50,"referenced_works":["https://openalex.org/W128985141","https://openalex.org/W311927316","https://openalex.org/W1507160177","https://openalex.org/W1888838956","https://openalex.org/W1982372752","https://openalex.org/W2019694242","https://openalex.org/W2019956985","https://openalex.org/W2020939898","https://openalex.org/W2055012634","https://openalex.org/W2092339835","https://openalex.org/W2100243754","https://openalex.org/W2101796829","https://openalex.org/W2102109092","https://openalex.org/W2106159290","https://openalex.org/W2110335151","https://openalex.org/W2111647009","https://openalex.org/W2124166542","https://openalex.org/W2130824586","https://openalex.org/W2142678478","https://openalex.org/W2152528032","https://openalex.org/W2153149273","https://openalex.org/W2160378127","https://openalex.org/W2289212387","https://openalex.org/W2306794997","https://openalex.org/W2538584349","https://openalex.org/W2558701369","https://openalex.org/W2605343262","https://openalex.org/W2614081736","https://openalex.org/W2762377150","https://openalex.org/W2807308836","https://openalex.org/W2903899730","https://openalex.org/W2977120819","https://openalex.org/W3001456238","https://openalex.org/W3003217347","https://openalex.org/W3004280078","https://openalex.org/W3004318991","https://openalex.org/W3007160431","https://openalex.org/W3010020071","https://openalex.org/W3010373510","https://openalex.org/W3013152614","https://openalex.org/W3015444032","https://openalex.org/W3015901070","https://openalex.org/W3023560309","https://openalex.org/W3031411888","https://openalex.org/W3039901154","https://openalex.org/W3043431476","https://openalex.org/W3046218112","https://openalex.org/W3087356468","https://openalex.org/W3089824742","https://openalex.org/W6774101627"],"related_works":["https://openalex.org/W3118830841","https://openalex.org/W2060858433","https://openalex.org/W2144073791","https://openalex.org/W3203757645","https://openalex.org/W3182721222","https://openalex.org/W3095730491","https://openalex.org/W4290085574","https://openalex.org/W3082300271","https://openalex.org/W4256095626","https://openalex.org/W3127156785"],"abstract_inverted_index":{"The":[0,20,176],"2019":[1],"novel":[2,112],"coronavirus":[3,113],"(SARS-CoV-2)":[4],"has":[5,114],"spread":[6],"rapidly":[7],"worldwide":[8],"and":[9,45,62,100,126,147,168,188],"was":[10],"declared":[11],"a":[12,49,80,92,160],"pandemic":[13],"by":[14],"the":[15,31,86,98,111,131,138,144,165],"WHO":[16],"in":[17,25,30,85,123,143,151,164,180],"March":[18],"2020.":[19],"evolution":[21,101,162],"of":[22,102,187],"SARS-CoV-2,":[23],"either":[24],"its":[26,75,171],"natural":[27,166],"reservoir":[28],"or":[29],"human":[32,105,139],"population,":[33,140],"is":[34,40],"still":[35],"unclear,":[36],"but":[37],"this":[38,181],"knowledge":[39],"essential":[41],"for":[42,72],"effective":[43],"prevention":[44],"control.":[46],"We":[47,65,89],"propose":[48],"new":[50,177],"framework":[51,178],"to":[52,60,77,96,170,174,190],"systematically":[53],"identify":[54],"recombination":[55,69,83],"events,":[56],"excluding":[57],"those":[58],"due":[59],"noise":[61],"convergent":[63],"evolution.":[64],"found":[66],"that":[67,110,119,127,157],"several":[68,117,128],"events":[70],"occurred":[71],"SARS-CoV-2":[73,103,158],"before":[74],"transfer":[76],"humans,":[78],"including":[79,141],"more":[81],"recent":[82],"event":[84],"receptor-binding":[87],"domain.":[88],"also":[90],"constructed":[91],"probabilistic":[93],"mutation":[94],"network":[95],"explore":[97],"diversity":[99],"after":[104],"infection.":[106],"Clustering":[107],"results":[108],"show":[109],"diverged":[115],"into":[116],"clusters":[118],"cocirculate":[120],"over":[121],"time":[122],"various":[124],"regions":[125],"mutations":[129,150],"across":[130],"genome":[132],"are":[133],"fixed":[134],"during":[135],"transmission":[136],"throughout":[137],"D614G":[142],"S":[145],"gene":[146],"two":[148],"accompanied":[149],"ORF1ab.":[152],"Together,":[153],"these":[154],"findings":[155],"suggest":[156],"experienced":[159],"complicated":[161],"process":[163],"environment":[167],"point":[169],"continuous":[172],"adaptation":[173],"humans.":[175],"proposed":[179],"study":[182],"can":[183],"help":[184],"our":[185],"understanding":[186],"response":[189],"other":[191],"emerging":[192],"pathogens.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
