{"id":"https://openalex.org/W1976695947","doi":"https://doi.org/10.1371/journal.pcbi.1002027","title":"A Bayesian Approach to Analyse Genetic Variation within RNA Viral Populations","display_name":"A Bayesian Approach to Analyse Genetic Variation within RNA Viral Populations","publication_year":2011,"publication_date":"2011-03-31","ids":{"openalex":"https://openalex.org/W1976695947","doi":"https://doi.org/10.1371/journal.pcbi.1002027","mag":"1976695947","pmid":"https://pubmed.ncbi.nlm.nih.gov/21483482"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1002027","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002027","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002027&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.1002027&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041581513","display_name":"Trevelyan J. McKinley","orcid":"https://orcid.org/0000-0002-9485-3236"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Trevelyan J. McKinley","raw_affiliation_strings":["Cambridge Infectious Diseases Consortium, Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom. tjm44@cam.ac.uk","Cambridge Infectious Diseases Consortium, Department of Veterinary","Medicine, University of Cambridge, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Cambridge Infectious Diseases Consortium, Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom. tjm44@cam.ac.uk","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"Cambridge Infectious Diseases Consortium, Department of Veterinary","institution_ids":[]},{"raw_affiliation_string":"Medicine, University of Cambridge, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086188845","display_name":"Pablo R. Murcia","orcid":"https://orcid.org/0000-0002-4352-394X"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Pablo R. Murcia","raw_affiliation_strings":["Cambridge Infectious Diseases Consortium, Department of Veterinary","Medicine, University of Cambridge, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Cambridge Infectious Diseases Consortium, Department of Veterinary","institution_ids":[]},{"raw_affiliation_string":"Medicine, University of Cambridge, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I241749"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042123952","display_name":"Julia R. Gog","orcid":"https://orcid.org/0000-0003-1240-7214"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Julia R. Gog","raw_affiliation_strings":["Cambridge, Cambridge, United Kingdom","Department of Applied Mathematics and Theoretical Physics, University of"],"affiliations":[{"raw_affiliation_string":"Cambridge, Cambridge, United Kingdom","institution_ids":[]},{"raw_affiliation_string":"Department of Applied Mathematics and Theoretical Physics, University of","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038569805","display_name":"Mariana Varela","orcid":"https://orcid.org/0009-0002-5794-9674"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mariana Varela","raw_affiliation_strings":["Department of Veterinary Medicine, University of Cambridge, Cambridge","United Kingdom"],"affiliations":[{"raw_affiliation_string":"Department of Veterinary Medicine, University of Cambridge, Cambridge","institution_ids":["https://openalex.org/I241749"]},{"raw_affiliation_string":"United Kingdom","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053014239","display_name":"James L. N. Wood","orcid":"https://orcid.org/0000-0002-0258-3188"},"institutions":[{"id":"https://openalex.org/I241749","display_name":"University of Cambridge","ror":"https://ror.org/013meh722","country_code":"GB","type":"education","lineage":["https://openalex.org/I241749"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"James L. N. Wood","raw_affiliation_strings":["Cambridge Infectious Diseases Consortium, Department of Veterinary","Medicine, University of Cambridge, Cambridge, United Kingdom"],"affiliations":[{"raw_affiliation_string":"Cambridge Infectious Diseases Consortium, Department of Veterinary","institution_ids":[]},{"raw_affiliation_string":"Medicine, University of Cambridge, Cambridge, United Kingdom","institution_ids":["https://openalex.org/I241749"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5041581513"],"corresponding_institution_ids":["https://openalex.org/I241749"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.9024,"has_fulltext":true,"cited_by_count":8,"citation_normalized_percentile":{"value":0.89356013,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"7","issue":"3","first_page":"e1002027","last_page":"e1002027"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11560","display_name":"Animal Disease Management and Epidemiology","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1102","display_name":"Agronomy and Crop Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11560","display_name":"Animal Disease Management and Epidemiology","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1102","display_name":"Agronomy and Crop Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9991999864578247,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991999864578247,"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/biology","display_name":"Biology","score":0.7620401382446289},{"id":"https://openalex.org/keywords/viral-evolution","display_name":"Viral evolution","score":0.6100211143493652},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5908580422401428},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.585424542427063},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5724711418151855},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5222926139831543},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4710146188735962},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.46789753437042236},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.34580397605895996},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.19963893294334412}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7620401382446289},{"id":"https://openalex.org/C8769409","wikidata":"https://www.wikidata.org/wiki/Q2066554","display_name":"Viral evolution","level":4,"score":0.6100211143493652},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5908580422401428},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.585424542427063},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5724711418151855},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5222926139831543},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4710146188735962},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.46789753437042236},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.34580397605895996},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.19963893294334412},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"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":"D006736","descriptor_name":"Horses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006736","descriptor_name":"Horses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006736","descriptor_name":"Horses","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008253","descriptor_name":"Macaca mulatta","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008253","descriptor_name":"Macaca mulatta","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008253","descriptor_name":"Macaca mulatta","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012328","descriptor_name":"RNA Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012328","descriptor_name":"RNA Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012328","descriptor_name":"RNA Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016915","descriptor_name":"AIDS Vaccines","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016915","descriptor_name":"AIDS Vaccines","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016915","descriptor_name":"AIDS Vaccines","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","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":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020133","descriptor_name":"Reverse Transcriptase Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1002027","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002027","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002027&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:21483482","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21483482","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:eprints.gla.ac.uk:69500","is_oa":false,"landing_page_url":"https://eprints.gla.ac.uk/view/author/16538.html>","pdf_url":null,"source":{"id":"https://openalex.org/S4210235606","display_name":"ENLIGHTEN (Jurnal Bimbingan dan Konseling Islam)","issn_l":"2622-8912","issn":["2622-8912","2622-8920"],"is_oa":false,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.807.512","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.807.512","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/33/43/pcbi.1002027.PMC3068928.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:948997612d504417a7e848bf7b3320f7","is_oa":true,"landing_page_url":"https://doaj.org/article/948997612d504417a7e848bf7b3320f7","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"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 7, Iss 3, p e1002027 (2011)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2084256","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3068928","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/137789","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/A_Bayesian_Approach_to_Analyse_Genetic_Variation_within_RNA_Viral___Populations/137789","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1002027","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1002027","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1002027&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":[],"awards":[{"id":"https://openalex.org/G5349546700","display_name":null,"funder_award_id":"RAPIDD","funder_id":"https://openalex.org/F4320332664","funder_display_name":"Science and Technology Directorate"},{"id":"https://openalex.org/G8478726093","display_name":null,"funder_award_id":"RAPIDD","funder_id":"https://openalex.org/F4320337356","funder_display_name":"Fogarty International Center"}],"funders":[{"id":"https://openalex.org/F4320306110","display_name":"U.S. Department of Homeland Security","ror":"https://ror.org/00jyr0d86"},{"id":"https://openalex.org/F4320307874","display_name":"Wellcome","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320310374","display_name":"Alborada Trust","ror":"https://ror.org/00c9bhj04"},{"id":"https://openalex.org/F4320319995","display_name":"Department for Environment, Food and Rural Affairs, UK Government","ror":"https://ror.org/00tnppw48"},{"id":"https://openalex.org/F4320320006","display_name":"Royal Society","ror":"https://ror.org/03wnrjx87"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332664","display_name":"Science and Technology Directorate","ror":"https://ror.org/00jyr0d86"},{"id":"https://openalex.org/F4320337356","display_name":"Fogarty International Center","ror":"https://ror.org/02xey9a22"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1976695947.pdf","grobid_xml":"https://content.openalex.org/works/W1976695947.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1525734744","https://openalex.org/W1963704583","https://openalex.org/W1964965583","https://openalex.org/W1974280310","https://openalex.org/W1980859332","https://openalex.org/W1992194744","https://openalex.org/W2001924896","https://openalex.org/W2002574877","https://openalex.org/W2065461553","https://openalex.org/W2078803352","https://openalex.org/W2096193010","https://openalex.org/W2102424972","https://openalex.org/W2108451182","https://openalex.org/W2110065044","https://openalex.org/W2110254129","https://openalex.org/W2111051773","https://openalex.org/W2135691292","https://openalex.org/W2142773663","https://openalex.org/W2145605402","https://openalex.org/W2147710356","https://openalex.org/W2148245437","https://openalex.org/W2151197540","https://openalex.org/W2156084908","https://openalex.org/W2168518217","https://openalex.org/W2582743722","https://openalex.org/W2767443199","https://openalex.org/W4211177544","https://openalex.org/W4254765132","https://openalex.org/W6631401015"],"related_works":["https://openalex.org/W2086525401","https://openalex.org/W2079327011","https://openalex.org/W2147993839","https://openalex.org/W2006735166","https://openalex.org/W2053325634","https://openalex.org/W1840103016","https://openalex.org/W193851735","https://openalex.org/W3178279768","https://openalex.org/W54859794","https://openalex.org/W2034409080"],"abstract_inverted_index":{"The":[0,81],"development":[1],"of":[2,12,21,27,90,99,126,136,141,159,172,177,181,215,238,250,259,275,290],"modern":[3],"and":[4,45,61,132,174,192,293],"affordable":[5],"sequencing":[6,173],"technologies":[7],"has":[8],"allowed":[9],"the":[10,25,86,115,130,139,142,156,170,175,178,198,218,257,273,281],"study":[11,26],"viral":[13,30,200,220],"populations":[14],"to":[15,35,40,47,52,74,145,151,190,208,228,244,255,271,285],"an":[16,78,233],"unprecedented":[17],"depth.":[18],"This":[19,163,202],"is":[20,67,165],"particular":[22],"interest":[23,182],"for":[24,197,298],"within-host":[28,219],"RNA":[29,54,79,94,137],"populations,":[31],"where":[32],"variation":[33],"due":[34],"error-prone":[36],"polymerases":[37],"can":[38,109,204,253],"lead":[39],"immune":[41],"escape,":[42],"antiviral":[43],"resistance":[44],"adaptation":[46],"new":[48],"host":[49],"species.":[50],"Methods":[51],"sequence":[53,116,161,231],"virus":[55],"genomes":[56],"include":[57],"reverse":[58],"transcription":[59],"(RT)":[60],"polymerase":[62],"chain":[63],"reaction":[64],"(PCR).":[65],"RT-PCR":[66],"a":[68,123,187,229,294],"molecular":[69,264],"biology":[70,265],"technique":[71],"widely":[72],"used":[73,144,207],"amplify":[75],"DNA":[76,92,100],"from":[77,93,287],"template.":[80],"method":[82,104,189,282],"itself":[83],"relies":[84],"on":[85],"in":[87,217],"vitro":[88],"synthesis":[89],"copy":[91],"followed":[95],"by":[96,283],"multiple":[97],"cycles":[98],"amplification.":[101],"However,":[102],"this":[103],"introduces":[105],"artefactual":[106],"errors":[107],"that":[108,212],"act":[110],"as":[111,168,268],"confounding":[112],"factors":[113],"when":[114],"data":[117],"are":[118,122],"analysed.":[119],"Although":[120],"there":[121],"growing":[124],"number":[125],"published":[127],"studies":[128],"exploring":[129],"intra-":[131],"inter-host":[133],"evolutionary":[134,247],"dynamics":[135],"viruses,":[138],"complexity":[140,164],"methods":[143],"generate":[146],"sequences":[147],"makes":[148],"it":[149],"difficult":[150],"produce":[152],"probabilistic":[153],"statements":[154],"about":[155],"likely":[157,195],"sources":[158],"observed":[160],"variants.":[162],"further":[166],"compounded":[167],"both":[169],"depth":[171],"length":[176],"genome":[179],"segment":[180],"increase.":[183],"Here":[184],"we":[185],"develop":[186],"bayesian":[188],"characterise":[191],"differentiate":[193],"between":[194],"structures":[196],"background":[199],"population.":[201],"approach":[203],"then":[205],"be":[206],"identify":[209],"nucleotide":[210],"sites":[211,252],"show":[213],"evidence":[214],"change":[216],"population":[221],"structure,":[222],"either":[223],"over":[224],"time":[225],"or":[226,235,240],"relative":[227],"reference":[230],"(e.g.":[232],"inoculum":[234],"another":[236],"source":[237],"infection),":[239],"both,":[241],"without":[242],"having":[243],"build":[245],"complex":[246],"models.":[248],"Identification":[249],"these":[251],"help":[254],"inform":[256],"design":[258],"more":[260],"focussed":[261],"experiments":[262],"using":[263],"tools,":[266],"such":[267],"site-directed":[269],"mutagenesis,":[270],"assess":[272],"function":[274],"specific":[276],"amino":[277],"acids.":[278],"We":[279],"illustrate":[280],"applying":[284],"datasets":[286],"experimental":[288],"transmission":[289],"equine":[291],"influenza,":[292],"pre-clinical":[295],"vaccine":[296],"trial":[297],"HIV-1.":[299]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}