{"id":"https://openalex.org/W2073800139","doi":"https://doi.org/10.1371/journal.pcbi.1004149","title":"Within-Host Stochastic Emergence Dynamics of Immune-Escape Mutants","display_name":"Within-Host Stochastic Emergence Dynamics of Immune-Escape Mutants","publication_year":2015,"publication_date":"2015-03-18","ids":{"openalex":"https://openalex.org/W2073800139","doi":"https://doi.org/10.1371/journal.pcbi.1004149","mag":"2073800139","pmid":"https://pubmed.ncbi.nlm.nih.gov/25785434"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1004149","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004149","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004149&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.1004149&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000460408","display_name":"Matthew Hartfield","orcid":"https://orcid.org/0000-0001-6941-0647"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I251321805","display_name":"Agropolis International","ror":"https://ror.org/00txxwv34","country_code":"FR","type":"other","lineage":["https://openalex.org/I251321805"]},{"id":"https://openalex.org/I4210087127","display_name":"Maladies Infectieuses et Vecteurs: \u00c9cologie, G\u00e9n\u00e9tique, \u00c9volution et Contr\u00f4le","ror":"https://ror.org/00357kh21","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I19894307","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210087127","https://openalex.org/I4210088668","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210107625","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4210166444","display_name":"Institut de Recherche pour le D\u00e9veloppement","ror":"https://ror.org/05q3vnk25","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Matthew Hartfield","raw_affiliation_strings":["Laboratoire MIVEGEC (UMR CNRS 5290, IRD 224, UM1, UM2), 911 avenue Agropolis, Montpellier, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire MIVEGEC (UMR CNRS 5290, IRD 224, UM1, UM2), 911 avenue Agropolis, Montpellier, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I251321805","https://openalex.org/I4210087127","https://openalex.org/I4210166444"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083653654","display_name":"Samuel Alizon","orcid":"https://orcid.org/0000-0002-0779-9543"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I251321805","display_name":"Agropolis International","ror":"https://ror.org/00txxwv34","country_code":"FR","type":"other","lineage":["https://openalex.org/I251321805"]},{"id":"https://openalex.org/I4210087127","display_name":"Maladies Infectieuses et Vecteurs: \u00c9cologie, G\u00e9n\u00e9tique, \u00c9volution et Contr\u00f4le","ror":"https://ror.org/00357kh21","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I19894307","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210087127","https://openalex.org/I4210088668","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210107625","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]},{"id":"https://openalex.org/I4210166444","display_name":"Institut de Recherche pour le D\u00e9veloppement","ror":"https://ror.org/05q3vnk25","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1327553481","https://openalex.org/I154202486","https://openalex.org/I2799535048","https://openalex.org/I2802818602","https://openalex.org/I4210088668","https://openalex.org/I4210090127","https://openalex.org/I4210113730","https://openalex.org/I4210131494","https://openalex.org/I4210166444","https://openalex.org/I4405257220"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Samuel Alizon","raw_affiliation_strings":["Laboratoire MIVEGEC (UMR CNRS 5290, IRD 224, UM1, UM2), 911 avenue Agropolis, Montpellier, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire MIVEGEC (UMR CNRS 5290, IRD 224, UM1, UM2), 911 avenue Agropolis, Montpellier, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I251321805","https://openalex.org/I4210087127","https://openalex.org/I4210166444"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5000460408"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I251321805","https://openalex.org/I4210087127","https://openalex.org/I4210166444"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.4498,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.71033232,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":97},"biblio":{"volume":"11","issue":"3","first_page":"e1004149","last_page":"e1004149"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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"}},"topics":[{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10482","display_name":"Mathematical and Theoretical Epidemiology and Ecology Models","score":0.9973000288009644,"subfield":{"id":"https://openalex.org/subfields/2739","display_name":"Public Health, Environmental and Occupational Health"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9907000064849854,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.7901594638824463},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7640421390533447},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.6101890206336975},{"id":"https://openalex.org/keywords/evolutionary-dynamics","display_name":"Evolutionary dynamics","score":0.5708673596382141},{"id":"https://openalex.org/keywords/susceptible-individual","display_name":"Susceptible individual","score":0.5528966784477234},{"id":"https://openalex.org/keywords/host","display_name":"Host (biology)","score":0.5202133059501648},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4765782356262207},{"id":"https://openalex.org/keywords/viral-evolution","display_name":"Viral evolution","score":0.4303112328052521},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.41663554310798645},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.37392181158065796},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17689073085784912},{"id":"https://openalex.org/keywords/demography","display_name":"Demography","score":0.12976062297821045},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.1179419755935669}],"concepts":[{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.7901594638824463},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7640421390533447},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.6101890206336975},{"id":"https://openalex.org/C171578705","wikidata":"https://www.wikidata.org/wiki/Q5418700","display_name":"Evolutionary dynamics","level":3,"score":0.5708673596382141},{"id":"https://openalex.org/C52103748","wikidata":"https://www.wikidata.org/wiki/Q2624927","display_name":"Susceptible individual","level":3,"score":0.5528966784477234},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.5202133059501648},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4765782356262207},{"id":"https://openalex.org/C8769409","wikidata":"https://www.wikidata.org/wiki/Q2066554","display_name":"Viral evolution","level":4,"score":0.4303112328052521},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.41663554310798645},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.37392181158065796},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17689073085784912},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.12976062297821045},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.1179419755935669},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D007239","descriptor_name":"Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054884","descriptor_name":"Host-Pathogen Interactions","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D054884","descriptor_name":"Host-Pathogen Interactions","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D054884","descriptor_name":"Host-Pathogen Interactions","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1004149","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004149","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004149&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:25785434","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25785434","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:europepmc.org:3332847","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4365036","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:HAL:hal-01567908v1","is_oa":false,"landing_page_url":"https://hal.science/hal-01567908","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, 2015, 11 (3), pp.e1004149. &#x27E8;10.1371/journal.pcbi.1004149&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:27d070ce335644eaa821db922a86f7b6","is_oa":true,"landing_page_url":"https://doaj.org/article/27d070ce335644eaa821db922a86f7b6","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 11, Iss 3, p e1004149 (2015)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/1341831","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_Within_Host_Stochastic_Emergence_Dynamics_of_Immune_Escape_Mutants_/1341831","pdf_url":null,"source":{"id":"https://openalex.org/S4306402621","display_name":"INDIGO (University of Illinois at Chicago)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I39422238","host_organization_name":"University of Illinois Chicago","host_organization_lineage":["https://openalex.org/I39422238"],"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.1004149","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1004149","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1004149&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":0.8299999833106995,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320893","display_name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","ror":"https://ror.org/02vjkv261"},{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2073800139.pdf","grobid_xml":"https://content.openalex.org/works/W2073800139.grobid-xml"},"referenced_works_count":70,"referenced_works":["https://openalex.org/W207440351","https://openalex.org/W228144990","https://openalex.org/W850470413","https://openalex.org/W1505360763","https://openalex.org/W1571102089","https://openalex.org/W1606697907","https://openalex.org/W1855857669","https://openalex.org/W1966421461","https://openalex.org/W1979778220","https://openalex.org/W1982494640","https://openalex.org/W1986992441","https://openalex.org/W1993527067","https://openalex.org/W1998705582","https://openalex.org/W2001999757","https://openalex.org/W2003124479","https://openalex.org/W2017013905","https://openalex.org/W2020814543","https://openalex.org/W2022687771","https://openalex.org/W2029031884","https://openalex.org/W2034160159","https://openalex.org/W2034269086","https://openalex.org/W2034902446","https://openalex.org/W2036078935","https://openalex.org/W2037450520","https://openalex.org/W2041440463","https://openalex.org/W2052226242","https://openalex.org/W2054704763","https://openalex.org/W2057132961","https://openalex.org/W2058538904","https://openalex.org/W2060735144","https://openalex.org/W2062210712","https://openalex.org/W2063285149","https://openalex.org/W2063755680","https://openalex.org/W2066671159","https://openalex.org/W2066937690","https://openalex.org/W2068635442","https://openalex.org/W2072971198","https://openalex.org/W2077302907","https://openalex.org/W2077869499","https://openalex.org/W2078447116","https://openalex.org/W2082134864","https://openalex.org/W2084924279","https://openalex.org/W2085366875","https://openalex.org/W2087875068","https://openalex.org/W2094556422","https://openalex.org/W2096779842","https://openalex.org/W2099182602","https://openalex.org/W2099449559","https://openalex.org/W2104283176","https://openalex.org/W2105656400","https://openalex.org/W2107528173","https://openalex.org/W2109970745","https://openalex.org/W2117937015","https://openalex.org/W2120479348","https://openalex.org/W2126062698","https://openalex.org/W2138876077","https://openalex.org/W2144413761","https://openalex.org/W2150236092","https://openalex.org/W2155418451","https://openalex.org/W2155782061","https://openalex.org/W2158212395","https://openalex.org/W2166022262","https://openalex.org/W2170731906","https://openalex.org/W2174382638","https://openalex.org/W2174694528","https://openalex.org/W2560367415","https://openalex.org/W4239975174","https://openalex.org/W4285719527","https://openalex.org/W4299292564","https://openalex.org/W4302331569"],"related_works":["https://openalex.org/W2920061786","https://openalex.org/W3040114068","https://openalex.org/W3033359651","https://openalex.org/W2160828336","https://openalex.org/W2093342101","https://openalex.org/W2090302847","https://openalex.org/W4240368351","https://openalex.org/W3018178499","https://openalex.org/W2883029773","https://openalex.org/W1984709868"],"abstract_inverted_index":{"Predicting":[0],"the":[1,15,25,35,49,93,114,124,134,154,159,190,207],"emergence":[2,23,75,94,137],"of":[3,11,17,37,83,96,127,136,138,153,214],"new":[4],"pathogenic":[5],"strains":[6,41,59,162,179],"is":[7,108],"a":[8,31,43,88,97,104,130,182],"key":[9],"goal":[10],"evolutionary":[12,232],"epidemiology.":[13],"However,":[14],"majority":[16],"existing":[18],"studies":[19],"have":[20],"focussed":[21],"on":[22],"at":[24],"population":[26],"level,":[27],"and":[28,39,66,222,224],"not":[29,193],"within":[30],"host.":[32],"In":[33],"particular,":[34],"coexistence":[36],"pre-existing":[38],"mutated":[40,58,139],"triggers":[42],"heightened":[44],"immune":[45,120,197,227],"response":[46],"due":[47,168,199],"to":[48,80,91,110,169,200,211],"larger":[50],"total":[51],"pathogen":[52],"population;":[53],"this":[54,145],"feedback":[55],"can":[56,147,229],"smother":[57],"before":[60],"they":[61],"reach":[62],"an":[63,171],"ample":[64],"size":[65],"establish.":[67],"Here,":[68],"we":[69,141],"extend":[70],"previous":[71],"work":[72],"for":[73],"measuring":[74],"probabilities":[76],"in":[77,113,133,158,209],"non-equilibrium":[78],"populations,":[79],"within-host":[81,212],"models":[82],"acute":[84],"infections.":[85],"We":[86,116,203],"create":[87],"mathematical":[89],"model":[90,155,208],"investigate":[92],"probability":[95,135],"fitter":[98],"strain":[99,106],"if":[100],"it":[101],"mutates":[102],"from":[103],"self-limiting":[105],"that":[107,118,163,180],"guaranteed":[109],"go":[111],"extinct":[112],"long-term.":[115],"show":[117],"ongoing":[119,196,226],"cell":[121],"proliferation":[122,198],"during":[123],"initial":[125],"stages":[126],"infection":[128],"causes":[129],"drastic":[131],"reduction":[132],"strains;":[140],"further":[142],"outline":[143],"how":[144,225],"effect":[146],"be":[148],"accurately":[149],"measured.":[150],"Further":[151],"analysis":[152],"shows":[156],"that,":[157],"short-term,":[160],"mutant":[161],"enlarge":[164],"their":[165,231],"replication":[166],"rate":[167,174,186],"evolving":[170],"increased":[172],"growth":[173,228],"are":[175],"more":[176],"favoured":[177],"than":[178],"suffer":[181],"lower":[183],"immune-mediated":[184],"death":[185],"('immune":[187],"tolerance'),":[188],"as":[189],"latter":[191],"does":[192],"completely":[194],"evade":[195],"inter-parasitic":[201],"competition.":[202],"end":[204],"by":[205],"discussing":[206],"relation":[210],"evolution":[213],"human":[215],"pathogens":[216],"(including":[217],"HIV,":[218],"hepatitis":[219],"C":[220],"virus,":[221],"cancer),":[223],"affect":[230],"dynamics.":[233]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
