{"id":"https://openalex.org/W3127415827","doi":"https://doi.org/10.1371/journal.pcbi.1008537","title":"Factors influencing estimates of HIV-1 infection timing using BEAST","display_name":"Factors influencing estimates of HIV-1 infection timing using BEAST","publication_year":2021,"publication_date":"2021-02-01","ids":{"openalex":"https://openalex.org/W3127415827","doi":"https://doi.org/10.1371/journal.pcbi.1008537","mag":"3127415827","pmid":"https://pubmed.ncbi.nlm.nih.gov/33524022"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1008537","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008537","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008537&type=printable","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://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008537&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012064390","display_name":"Bethany L. Dearlove","orcid":"https://orcid.org/0000-0003-3653-4592"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bethany Dearlove","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-3653-4592","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001063157","display_name":"Sodsai Tovanabutra","orcid":"https://orcid.org/0000-0002-5946-4227"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sodsai Tovanabutra","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-5946-4227","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063189430","display_name":"Christopher L. Owen","orcid":"https://orcid.org/0000-0003-0293-8601"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Christopher L. Owen","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-0293-8601","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061342418","display_name":"\u00c9ric Lewitus","orcid":"https://orcid.org/0000-0001-6459-2437"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eric Lewitus","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-6459-2437","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100427016","display_name":"Yifan Li","orcid":"https://orcid.org/0000-0001-7038-2671"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yifan Li","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-7038-2671","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012110068","display_name":"Eric Sanders\u2010Buell","orcid":"https://orcid.org/0000-0002-1694-0529"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eric Sanders-Buell","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066315416","display_name":"Meera Bose","orcid":"https://orcid.org/0000-0003-4151-0958"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Meera Bose","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-4151-0958","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021655886","display_name":"Anne Marie O\u2019Sullivan","orcid":"https://orcid.org/0000-0003-2435-5298"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Anne-Marie O\u2019Sullivan","raw_affiliation_strings":["U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-2435-5298","affiliations":[{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]},{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074342651","display_name":"Gustavo H. Kijak","orcid":"https://orcid.org/0000-0002-2746-9533"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gustavo Kijak","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-2746-9533","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110534155","display_name":"Shana Miller","orcid":null},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Shana Miller","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018751325","display_name":"Kultida Poltavee","orcid":null},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kultida Poltavee","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054231200","display_name":"Jenica Lee","orcid":null},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jenica Lee","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030132842","display_name":"Lydia Bonar","orcid":null},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lydia Bonar","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111328239","display_name":"Elizabeth Harbolick","orcid":null},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Elizabeth Harbolick","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087949864","display_name":"Bahar Ahani","orcid":"https://orcid.org/0000-0002-1814-0760"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bahar Ahani","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-1814-0760","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009156196","display_name":"Phuc Pham","orcid":"https://orcid.org/0000-0003-2354-7546"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Phuc Pham","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070877757","display_name":"Hannah Kibuuka","orcid":"https://orcid.org/0000-0002-2293-1944"},"institutions":[{"id":"https://openalex.org/I2800255189","display_name":"Makerere University Walter Reed Project","ror":"https://ror.org/02mgm5r23","country_code":"UG","type":"nonprofit","lineage":["https://openalex.org/I2800255189"]}],"countries":["UG"],"is_corresponding":true,"raw_author_name":"Hannah Kibuuka","raw_affiliation_strings":["Makerere University Walter Reed Project, Kampala, Uganda"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Makerere University Walter Reed Project, Kampala, Uganda","institution_ids":["https://openalex.org/I2800255189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003078735","display_name":"Lucas Maganga","orcid":"https://orcid.org/0000-0001-7519-0628"},"institutions":[{"id":"https://openalex.org/I4210164902","display_name":"National Institute for Medical Research","ror":"https://ror.org/05fjs7w98","country_code":"TZ","type":"facility","lineage":["https://openalex.org/I2801810276","https://openalex.org/I4210164902"]}],"countries":["TZ"],"is_corresponding":true,"raw_author_name":"Lucas Maganga","raw_affiliation_strings":["National Institute for Medical Research-Mbeya Medical Research Centre, Mbeya, Tanzania"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Institute for Medical Research-Mbeya Medical Research Centre, Mbeya, Tanzania","institution_ids":["https://openalex.org/I4210164902"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072696926","display_name":"Sorachai Nitayaphan","orcid":"https://orcid.org/0000-0001-6935-1405"},"institutions":[{"id":"https://openalex.org/I4210112607","display_name":"Armed Forces Research Institute of Medical Science","ror":"https://ror.org/023swxh49","country_code":"TH","type":"nonprofit","lineage":["https://openalex.org/I2801080794","https://openalex.org/I4210112607","https://openalex.org/I4387156032"]}],"countries":["TH"],"is_corresponding":true,"raw_author_name":"Sorachai Nitayaphan","raw_affiliation_strings":["Armed Forces Research Institute of Medical Sciences, Bangkok, Thailand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Armed Forces Research Institute of Medical Sciences, Bangkok, Thailand","institution_ids":["https://openalex.org/I4210112607"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051742297","display_name":"Fred Sawe","orcid":"https://orcid.org/0000-0002-0748-8032"},"institutions":[{"id":"https://openalex.org/I2802125050","display_name":"United States Army Medical Research Directorate - Africa","ror":"https://ror.org/00bxym797","country_code":"KE","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802125050","https://openalex.org/I2802581893","https://openalex.org/I92664306"]},{"id":"https://openalex.org/I2841861","display_name":"Kenya Medical Research Institute","ror":"https://ror.org/04r1cxt79","country_code":"KE","type":"facility","lineage":["https://openalex.org/I2841861","https://openalex.org/I87048295"]}],"countries":["KE"],"is_corresponding":true,"raw_author_name":"Fred K. Sawe","raw_affiliation_strings":["Kenya Medical Research Institute/U.S. Army Medical Research Directorate-Africa/Kenya-Henry Jackson Foundation MRI, Kericho, Kenya"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Kenya Medical Research Institute/U.S. Army Medical Research Directorate-Africa/Kenya-Henry Jackson Foundation MRI, Kericho, Kenya","institution_ids":["https://openalex.org/I2802125050","https://openalex.org/I2841861"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001108158","display_name":"J\u00e9r\u00f4me H. Kim","orcid":"https://orcid.org/0000-0003-0461-6438"},"institutions":[{"id":"https://openalex.org/I1309827724","display_name":"International Vaccine Institute","ror":"https://ror.org/02yfanq70","country_code":"KR","type":"nonprofit","lineage":["https://openalex.org/I1309827724"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Jerome H. Kim","raw_affiliation_strings":["International Vaccine Institute, Seoul, S. Korea"],"raw_orcid":"https://orcid.org/0000-0003-0461-6438","affiliations":[{"raw_affiliation_string":"International Vaccine Institute, Seoul, S. Korea","institution_ids":["https://openalex.org/I1309827724"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046264591","display_name":"Leigh Anne Eller","orcid":"https://orcid.org/0000-0003-2043-1513"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Leigh Anne Eller","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039272834","display_name":"Sandhya Vasan","orcid":"https://orcid.org/0000-0002-6378-6288"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sandhya Vasan","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-6378-6288","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043039016","display_name":"Robert Gramzinski","orcid":"https://orcid.org/0000-0002-0422-5077"},"institutions":[{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Robert Gramzinski","raw_affiliation_strings":["U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-0422-5077","affiliations":[{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036265394","display_name":"Nelson L. Michael","orcid":"https://orcid.org/0000-0001-5882-5548"},"institutions":[{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nelson L. Michael","raw_affiliation_strings":["Center for Infectious Diseases Research, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Infectious Diseases Research, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076820552","display_name":"Merlin L. Robb","orcid":"https://orcid.org/0000-0003-3949-9649"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Merlin L. Robb","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-3949-9649","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067755958","display_name":"Morgane Rolland","orcid":"https://orcid.org/0000-0003-3650-8490"},"institutions":[{"id":"https://openalex.org/I1280259254","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1280259254"]},{"id":"https://openalex.org/I92664306","display_name":"Walter Reed Army Institute of Research","ror":"https://ror.org/0145znz58","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I2802581893","https://openalex.org/I92664306"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Morgane Rolland","raw_affiliation_strings":["Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-3650-8490","affiliations":[{"raw_affiliation_string":"Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc., Bethesda, Maryland, United States of America","institution_ids":["https://openalex.org/I1280259254"]},{"raw_affiliation_string":"U.S. Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland, United States of America","institution_ids":["https://openalex.org/I92664306"]}]},{"author_position":"last","author":{"id":null,"display_name":"the RV217 Study Team","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"the RV217 Study Team","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":6,"institutions_distinct_count":28,"corresponding_author_ids":["https://openalex.org/A5001063157","https://openalex.org/A5001108158","https://openalex.org/A5003078735","https://openalex.org/A5009156196","https://openalex.org/A5012064390","https://openalex.org/A5012110068","https://openalex.org/A5018751325","https://openalex.org/A5021655886","https://openalex.org/A5030132842","https://openalex.org/A5036265394","https://openalex.org/A5039272834","https://openalex.org/A5043039016","https://openalex.org/A5046264591","https://openalex.org/A5051742297","https://openalex.org/A5054231200","https://openalex.org/A5061342418","https://openalex.org/A5063189430","https://openalex.org/A5066315416","https://openalex.org/A5067755958","https://openalex.org/A5070877757","https://openalex.org/A5072696926","https://openalex.org/A5074342651","https://openalex.org/A5076820552","https://openalex.org/A5087949864","https://openalex.org/A5100427016","https://openalex.org/A5110534155","https://openalex.org/A5111328239"],"corresponding_institution_ids":["https://openalex.org/I1280259254","https://openalex.org/I1309827724","https://openalex.org/I2800255189","https://openalex.org/I2802125050","https://openalex.org/I2841861","https://openalex.org/I4210112607","https://openalex.org/I4210164902","https://openalex.org/I92664306"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.7194,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.63235976,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"17","issue":"2","first_page":"e1008537","last_page":"e1008537"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9886999726295471,"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/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.6302151679992676},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5677294731140137},{"id":"https://openalex.org/keywords/cohort","display_name":"Cohort","score":0.5665907263755798},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.531048595905304},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5281037092208862},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.49413517117500305},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3749094009399414},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.373171329498291},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.35742712020874023},{"id":"https://openalex.org/keywords/demography","display_name":"Demography","score":0.3486536145210266},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.3270639181137085},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.31950050592422485},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.2618224024772644}],"concepts":[{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.6302151679992676},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5677294731140137},{"id":"https://openalex.org/C72563966","wikidata":"https://www.wikidata.org/wiki/Q1303415","display_name":"Cohort","level":2,"score":0.5665907263755798},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.531048595905304},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5281037092208862},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.49413517117500305},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3749094009399414},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.373171329498291},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.35742712020874023},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.3486536145210266},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.3270639181137085},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.31950050592422485},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.2618224024772644},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001499","descriptor_name":"Bayes Theorem","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005814","descriptor_name":"Genes, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005814","descriptor_name":"Genes, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005814","descriptor_name":"Genes, Viral","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":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015331","descriptor_name":"Cohort Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000453","qualifier_name":"epidemiology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016013","descriptor_name":"Likelihood Functions","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}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1008537","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008537","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008537&type=printable","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:33524022","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33524022","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:pure.amsterdamumc.nl:openaire/ed5dc363-34f1-4690-8417-eb1531c9cd84","is_oa":true,"landing_page_url":"https://pure.amsterdamumc.nl/en/publications/ed5dc363-34f1-4690-8417-eb1531c9cd84","pdf_url":"https://pure.amsterdamumc.nl/ws/files/151439844/Factors-influencing-estimates-of-hiv-1-infection-timing-using-beast.pdf","source":{"id":"https://openalex.org/S7407055222","display_name":"Pure Amsterdam UMC","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","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"the RV217 Study Team 2021, 'Factors influencing estimates of HIV-1 infection timing using BEAST', PLoS computational biology, vol. 17, no. 2, e1008537. https://doi.org/10.1371/JOURNAL.PCBI.1008537","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:amcpub:oai:pure.amc.nl:publications/5dc4e471-ce56-45e0-9808-95a1502adede","is_oa":true,"landing_page_url":"https://pure.amc.nl/en/publications/factors-influencing-estimates-of-hiv1-infection-timing-using-beast(5dc4e471-ce56-45e0-9808-95a1502adede).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS computational biology, 17(2):e1008537. Public Library of Science","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:b0c174c950ec4182833e083b931ec6e3","is_oa":true,"landing_page_url":"https://doaj.org/article/b0c174c950ec4182833e083b931ec6e3","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 17, Iss 2, p e1008537 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7877758","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7877758","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1008537","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1008537","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1008537&type=printable","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":[{"score":0.699999988079071,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G2136801077","display_name":null,"funder_award_id":"W81XWH-11-2-0174","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"},{"id":"https://openalex.org/G4119534169","display_name":null,"funder_award_id":"W81XWH","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"},{"id":"https://openalex.org/G553107086","display_name":null,"funder_award_id":"W81XWH-18-2-0040","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"},{"id":"https://openalex.org/G6063997168","display_name":null,"funder_award_id":"W81XWH-11-2-0174","funder_id":"https://openalex.org/F4320307611","funder_display_name":"Henry M. Jackson Foundation"},{"id":"https://openalex.org/G633733221","display_name":null,"funder_award_id":"W81XWH-18-2-0040","funder_id":"https://openalex.org/F4320307611","funder_display_name":"Henry M. Jackson Foundation"},{"id":"https://openalex.org/G6690869392","display_name":null,"funder_award_id":"W81XWH-07-2-0067","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"},{"id":"https://openalex.org/G8007610215","display_name":null,"funder_award_id":"W81XWH-07-2-0067","funder_id":"https://openalex.org/F4320307611","funder_display_name":"Henry M. Jackson Foundation"},{"id":"https://openalex.org/G8166743225","display_name":null,"funder_award_id":"W81XWH-18","funder_id":"https://openalex.org/F4320306078","funder_display_name":"U.S. Department of Defense"}],"funders":[{"id":"https://openalex.org/F4320306078","display_name":"U.S. Department of Defense","ror":"https://ror.org/0447fe631"},{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320307611","display_name":"Henry M. Jackson Foundation","ror":"https://ror.org/04q9tew83"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3127415827.pdf","grobid_xml":"https://content.openalex.org/works/W3127415827.grobid-xml"},"referenced_works_count":63,"referenced_works":["https://openalex.org/W1549853756","https://openalex.org/W1560443615","https://openalex.org/W1587026990","https://openalex.org/W1880845650","https://openalex.org/W1970129213","https://openalex.org/W1987423081","https://openalex.org/W1993046026","https://openalex.org/W2002574877","https://openalex.org/W2003051762","https://openalex.org/W2004416353","https://openalex.org/W2007593785","https://openalex.org/W2035738809","https://openalex.org/W2038852567","https://openalex.org/W2054306713","https://openalex.org/W2094939159","https://openalex.org/W2098232873","https://openalex.org/W2098998255","https://openalex.org/W2105538746","https://openalex.org/W2111424166","https://openalex.org/W2111647009","https://openalex.org/W2118048521","https://openalex.org/W2118351251","https://openalex.org/W2119284380","https://openalex.org/W2126141460","https://openalex.org/W2130138427","https://openalex.org/W2130362098","https://openalex.org/W2134213231","https://openalex.org/W2135590910","https://openalex.org/W2148102806","https://openalex.org/W2151409320","https://openalex.org/W2152534166","https://openalex.org/W2153432740","https://openalex.org/W2154556944","https://openalex.org/W2156358357","https://openalex.org/W2164582219","https://openalex.org/W2171126517","https://openalex.org/W2171142493","https://openalex.org/W2210604002","https://openalex.org/W2221838748","https://openalex.org/W2292351551","https://openalex.org/W2314893245","https://openalex.org/W2322358787","https://openalex.org/W2402980652","https://openalex.org/W2530986017","https://openalex.org/W2563535234","https://openalex.org/W2564054800","https://openalex.org/W2582743722","https://openalex.org/W2611511275","https://openalex.org/W2742086727","https://openalex.org/W2803977340","https://openalex.org/W2885492560","https://openalex.org/W2901927999","https://openalex.org/W2903489091","https://openalex.org/W2945282335","https://openalex.org/W2950424777","https://openalex.org/W2989520493","https://openalex.org/W3005077496","https://openalex.org/W3008471485","https://openalex.org/W3016352084","https://openalex.org/W4211177544","https://openalex.org/W4254687493","https://openalex.org/W4399590719","https://openalex.org/W6679929430"],"related_works":["https://openalex.org/W4312203868","https://openalex.org/W2069013776","https://openalex.org/W2038264393","https://openalex.org/W2059637021","https://openalex.org/W2378282666","https://openalex.org/W4210644918","https://openalex.org/W2243442814","https://openalex.org/W2144958703","https://openalex.org/W2080410528","https://openalex.org/W2529820324"],"abstract_inverted_index":{"While":[0],"large":[1],"datasets":[2,248],"of":[3,19,46,73,93,166,212,232],"HIV-1":[4,53,60,97,108,135,233],"sequences":[5,98],"are":[6],"increasingly":[7],"being":[8],"generated,":[9],"many":[10],"studies":[11,25],"rely":[12],"on":[13],"a":[14,71,90,210,236],"single":[15,181],"gene":[16],"or":[17,265],"fragment":[18],"the":[20,47,64,77,133,170,183,205],"genome":[21,206],"and":[22,34,69,104,118,126,147,159,169,199,262],"few":[23],"comparative":[24],"across":[26,157],"genes":[27,267],"have":[28],"been":[29],"done.":[30],"We":[31,95,113],"performed":[32],"genome-based":[33],"gene-specific":[35],"Bayesian":[36,171],"phylogenetic":[37],"analyses":[38],"to":[39,63,83,89,128,175,188,221,225,229,246],"investigate":[40],"how":[41],"certain":[42],"factors":[43],"impact":[44],"estimates":[45,86,231],"infection":[48,54,184,234],"dates":[49],"in":[50,110,123,132],"an":[51],"acute":[52,124],"cohort,":[55,59],"RV217.":[56],"In":[57],"this":[58],"diagnosis":[61,109],"corresponded":[62],"first":[65],"RNA":[66],"positive":[67],"test":[68],"occurred":[70],"median":[72,211],"four":[74],"days":[75,214],"after":[76,107],"last":[78],"negative":[79],"test,":[80],"allowing":[81],"us":[82],"compare":[84,226],"timing":[85,130,227],"using":[87,259],"BEAST":[88],"narrow":[91],"window":[92],"infection.":[94,251],"analyzed":[96,142],"sampled":[99],"one":[100,102,154,191],"week,":[101],"month":[103],"six":[105],"months":[106],"39":[111],"individuals.":[112],"found":[114],"that":[115,239],"shared":[116],"diversity":[117],"temporal":[119],"signal":[120],"was":[121,152,186],"limited":[122,269],"infection,":[125],"insufficient":[127],"allow":[129],"inferences":[131,228],"shortest":[134],"genes,":[136,160],"thus":[137],"dated":[138],"phylogenies":[139],"were":[140],"primarily":[141],"for":[143,194],"env,":[144],"gag,":[145],"pol":[146],"near":[148],"full-length":[149],"genomes.":[150],"There":[151],"no":[153],"best-fitting":[155,167],"model":[156],"participants":[158],"though":[161],"relaxed":[162],"molecular":[163,240],"clocks":[164],"(73%":[165],"models)":[168],"skyline":[172],"(49%)":[173],"tended":[174],"be":[176,189,244],"favored.":[177],"For":[178],"infections":[179,218],"with":[180,268],"founders,":[182],"date":[185],"estimated":[187],"around":[190],"week":[192],"pre-diagnosis":[193],"env":[195],"(IQR:":[196,201,215],"3-9":[197],"days)":[198],"gag":[200],"5-9":[202],"days),":[203],"whilst":[204],"placed":[207],"it":[208],"at":[209],"10":[213],"4-19).":[216],"Multiply-founded":[217],"proved":[219],"problematic":[220],"date.":[222],"Our":[223],"ability":[224],"precise":[230],"(within":[235],"week)":[237],"highlights":[238],"dating":[241],"methods":[242],"can":[243],"applied":[245],"within-host":[247],"from":[249],"early":[250],"Nonetheless,":[252],"our":[253],"results":[254],"also":[255],"suggest":[256],"caution":[257],"when":[258],"uniform":[260],"clock":[261],"population":[263],"models":[264],"short":[266],"information":[270],"content.":[271]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}