{"id":"https://openalex.org/W2019540896","doi":"https://doi.org/10.1371/journal.pcbi.1003830","title":"Baseline CD4+ T Cell Counts Correlates with HIV-1 Synonymous Rate in HLA-B*5701 Subjects with Different Risk of Disease Progression","display_name":"Baseline CD4+ T Cell Counts Correlates with HIV-1 Synonymous Rate in HLA-B*5701 Subjects with Different Risk of Disease Progression","publication_year":2014,"publication_date":"2014-09-04","ids":{"openalex":"https://openalex.org/W2019540896","doi":"https://doi.org/10.1371/journal.pcbi.1003830","mag":"2019540896","pmid":"https://pubmed.ncbi.nlm.nih.gov/25187947"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1003830","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003830","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003830&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.1003830&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012396011","display_name":"Melissa M. Norstr\u00f6m","orcid":null},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Melissa M. Norstr\u00f6m","raw_affiliation_strings":["Division of Clinical Microbiology & Center for HIV Research, Department of Laboratory Medicine, Karolinska Institutet, Stockholm, Sweden"],"affiliations":[{"raw_affiliation_string":"Division of Clinical Microbiology & Center for HIV Research, Department of Laboratory Medicine, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086461706","display_name":"Nazle Mendon\u00e7a Colla\u00e7o V\u00e9ras","orcid":"https://orcid.org/0000-0002-0501-997X"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nazle M. Veras","raw_affiliation_strings":["Department of Pathology, Immunology and Laboratory Medicine & Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Pathology, Immunology and Laboratory Medicine & Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044401686","display_name":"Wei Huang","orcid":"https://orcid.org/0000-0003-0773-0105"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wei Huang","raw_affiliation_strings":["Monogram Biosciences Inc., South San Francisco, California, United States of America","Monogram Biosciences Inc, South San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Monogram Biosciences Inc., South San Francisco, California, United States of America","institution_ids":[]},{"raw_affiliation_string":"Monogram Biosciences Inc, South San Francisco, California, United States of America","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056888182","display_name":"Mattia C. F. Proper","orcid":null},"institutions":[{"id":"https://openalex.org/I28407311","display_name":"University of Manchester","ror":"https://ror.org/027m9bs27","country_code":"GB","type":"education","lineage":["https://openalex.org/I28407311"]},{"id":"https://openalex.org/I2799725268","display_name":"Manchester Academic Health Science Centre","ror":"https://ror.org/04rrkhs81","country_code":"GB","type":"healthcare","lineage":["https://openalex.org/I2799725268"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Mattia C. F. Proper","raw_affiliation_strings":["Centre for Health Informatics, Institute of Population Health, University of Manchester, Manchester, United Kingdom","Centre for Health Informatics, Institute of Population Health, University of Manchester; Manchester United Kingdom"],"affiliations":[{"raw_affiliation_string":"Centre for Health Informatics, Institute of Population Health, University of Manchester, Manchester, United Kingdom","institution_ids":["https://openalex.org/I2799725268","https://openalex.org/I28407311"]},{"raw_affiliation_string":"Centre for Health Informatics, Institute of Population Health, University of Manchester; Manchester United Kingdom","institution_ids":["https://openalex.org/I28407311"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112417673","display_name":"Jennifer Cook","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jennifer Cook","raw_affiliation_strings":["Monogram Biosciences Inc., South San Francisco, California, United States of America","Monogram Biosciences Inc, South San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"Monogram Biosciences Inc., South San Francisco, California, United States of America","institution_ids":[]},{"raw_affiliation_string":"Monogram Biosciences Inc, South San Francisco, California, United States of America","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033531541","display_name":"Wendy Hartogensis","orcid":"https://orcid.org/0000-0002-4979-8661"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I1295908608","display_name":"San Francisco General Hospital","ror":"https://ror.org/05j8x4n38","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295908608"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wendy Hartogensis","raw_affiliation_strings":["UCSF Positive Health Program, San Francisco General Hospital, University of California, San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"UCSF Positive Health Program, San Francisco General Hospital, University of California, San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1295908608","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037397706","display_name":"Frederick Hecht","orcid":"https://orcid.org/0000-0002-5782-1171"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]},{"id":"https://openalex.org/I1295908608","display_name":"San Francisco General Hospital","ror":"https://ror.org/05j8x4n38","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295908608"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Frederick M. Hecht","raw_affiliation_strings":["UCSF Positive Health Program, San Francisco General Hospital, University of California, San Francisco, San Francisco, California, United States of America"],"affiliations":[{"raw_affiliation_string":"UCSF Positive Health Program, San Francisco General Hospital, University of California, San Francisco, San Francisco, California, United States of America","institution_ids":["https://openalex.org/I1295908608","https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111670065","display_name":"Annika C. Karlsoon","orcid":null},"institutions":[{"id":"https://openalex.org/I28166907","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691","country_code":"SE","type":"education","lineage":["https://openalex.org/I28166907"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Annika C. Karlsoon","raw_affiliation_strings":["Division of Clinical Microbiology & Center for HIV Research, Department of Laboratory Medicine, Karolinska Institutet, Stockholm, Sweden"],"affiliations":[{"raw_affiliation_string":"Division of Clinical Microbiology & Center for HIV Research, Department of Laboratory Medicine, Karolinska Institutet, Stockholm, Sweden","institution_ids":["https://openalex.org/I28166907"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5030387965","display_name":"Marco Salemi","orcid":"https://orcid.org/0000-0003-0136-2102"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Marco Salemi","raw_affiliation_strings":["Department of Pathology, Immunology and Laboratory Medicine & Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America"],"affiliations":[{"raw_affiliation_string":"Department of Pathology, Immunology and Laboratory Medicine & Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States of America","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5030387965","https://openalex.org/A5111670065"],"corresponding_institution_ids":["https://openalex.org/I28166907","https://openalex.org/I33213144"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.1517,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.48817021,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"10","issue":"9","first_page":"e1003830","last_page":"e1003830"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9998999834060669,"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":0.9998999834060669,"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/T10526","display_name":"HIV/AIDS drug development and treatment","score":0.977400004863739,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10082","display_name":"HIV/AIDS Research and Interventions","score":0.9646000266075134,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6918624043464661},{"id":"https://openalex.org/keywords/viral-load","display_name":"Viral load","score":0.6217634081840515},{"id":"https://openalex.org/keywords/human-leukocyte-antigen","display_name":"Human leukocyte antigen","score":0.5460522174835205},{"id":"https://openalex.org/keywords/nonsynonymous-substitution","display_name":"Nonsynonymous substitution","score":0.46099570393562317},{"id":"https://openalex.org/keywords/viral-replication","display_name":"Viral replication","score":0.447681725025177},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.42933544516563416},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.41538742184638977},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.3825317323207855},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.23890772461891174},{"id":"https://openalex.org/keywords/demography","display_name":"Demography","score":0.13605746626853943},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12524130940437317},{"id":"https://openalex.org/keywords/antigen","display_name":"Antigen","score":0.11330172419548035}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6918624043464661},{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.6217634081840515},{"id":"https://openalex.org/C188280979","wikidata":"https://www.wikidata.org/wiki/Q911125","display_name":"Human leukocyte antigen","level":3,"score":0.5460522174835205},{"id":"https://openalex.org/C149904235","wikidata":"https://www.wikidata.org/wiki/Q7049620","display_name":"Nonsynonymous substitution","level":4,"score":0.46099570393562317},{"id":"https://openalex.org/C140704245","wikidata":"https://www.wikidata.org/wiki/Q3933202","display_name":"Viral replication","level":3,"score":0.447681725025177},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.42933544516563416},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.41538742184638977},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.3825317323207855},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.23890772461891174},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.13605746626853943},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12524130940437317},{"id":"https://openalex.org/C147483822","wikidata":"https://www.wikidata.org/wiki/Q103537","display_name":"Antigen","level":2,"score":0.11330172419548035},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.0},{"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":"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":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014779","descriptor_name":"Virus Replication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014779","descriptor_name":"Virus Replication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014779","descriptor_name":"Virus Replication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015235","descriptor_name":"HLA-B Antigens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015235","descriptor_name":"HLA-B Antigens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015235","descriptor_name":"HLA-B Antigens","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015496","descriptor_name":"CD4-Positive T-Lymphocytes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015496","descriptor_name":"CD4-Positive T-Lymphocytes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015496","descriptor_name":"CD4-Positive T-Lymphocytes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016655","descriptor_name":"HIV Core Protein p24","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","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":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1003830","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003830","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003830&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:25187947","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25187947","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:47bac434fb8a4b59adc4bc1940044c14","is_oa":true,"landing_page_url":"https://doaj.org/article/47bac434fb8a4b59adc4bc1940044c14","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 10, Iss 9, p e1003830 (2014)","raw_type":"article"},{"id":"pmh:oai:escholarship.org/ark:/13030/qt5nn5b6t3","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/5nn5b6t3","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"article"},{"id":"pmh:oai:europepmc.org:3126915","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4154639","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/1162413","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/Baseline_CD4_T_Cell_Counts_Correlates_with_HIV_1_Synonymous_Rate_in_HLA_B_5701_Subjects_with_Different_Risk_of_Disease_Progression/1162413","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"},{"id":"pmh:qt5nn5b6t3","is_oa":false,"landing_page_url":"http://www.escholarship.org/uc/item/5nn5b6t3","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Hecht, Frederick; Norstr\u00c3\u00b6m, MM; Veras, NM; Huang, W; Proper, MCF; Cook, J; \u00c2\u00a0et al.(2014). Baseline CD4+ T Cell Counts Correlates with HIV-1 Synonymous Rate in HLA-B*5701 Subjects with Different Risk of Disease Progression. UC San Francisco: Retrieved from: http://www.escholarship.org/uc/item/5nn5b6t3","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1003830","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003830","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003830&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":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8100000023841858}],"awards":[{"id":"https://openalex.org/G1603811019","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320322315","funder_display_name":"Karolinska Institutet"},{"id":"https://openalex.org/G7235411632","display_name":null,"funder_award_id":"Grant 2011","funder_id":"https://openalex.org/F4320306115","funder_display_name":"United States Agency for International Development"},{"id":"https://openalex.org/G7487202279","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320307875","funder_display_name":"Styrelsen f\u00f6r Internationellt Utvecklingssamarbete"}],"funders":[{"id":"https://openalex.org/F4320306115","display_name":"United States Agency for International Development","ror":"https://ror.org/01n6e6j62"},{"id":"https://openalex.org/F4320307875","display_name":"Styrelsen f\u00f6r Internationellt Utvecklingssamarbete","ror":"https://ror.org/01fn7me06"},{"id":"https://openalex.org/F4320310009","display_name":"University of Florida","ror":"https://ror.org/02y3ad647"},{"id":"https://openalex.org/F4320322315","display_name":"Karolinska Institutet","ror":"https://ror.org/056d84691"},{"id":"https://openalex.org/F4320322581","display_name":"Vetenskapsr\u00e5det","ror":"https://ror.org/03zttf063"},{"id":"https://openalex.org/F4320324618","display_name":"Svenska L\u00e4kares\u00e4llskapet","ror":"https://ror.org/016ks4x90"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2019540896.pdf","grobid_xml":"https://content.openalex.org/works/W2019540896.grobid-xml"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W1581940036","https://openalex.org/W1655510925","https://openalex.org/W1964475452","https://openalex.org/W1976608858","https://openalex.org/W1977862457","https://openalex.org/W1995453338","https://openalex.org/W2009102382","https://openalex.org/W2009111710","https://openalex.org/W2039950438","https://openalex.org/W2042322534","https://openalex.org/W2045391589","https://openalex.org/W2046751613","https://openalex.org/W2053695022","https://openalex.org/W2063396456","https://openalex.org/W2077713919","https://openalex.org/W2084513007","https://openalex.org/W2087484510","https://openalex.org/W2094939159","https://openalex.org/W2096130477","https://openalex.org/W2099182602","https://openalex.org/W2109130469","https://openalex.org/W2113286403","https://openalex.org/W2118115182","https://openalex.org/W2118748608","https://openalex.org/W2121196034","https://openalex.org/W2126515754","https://openalex.org/W2126773783","https://openalex.org/W2127031590","https://openalex.org/W2128620327","https://openalex.org/W2130362098","https://openalex.org/W2136847298","https://openalex.org/W2138673061","https://openalex.org/W2142391696","https://openalex.org/W2142405752","https://openalex.org/W2142773663","https://openalex.org/W2144413932","https://openalex.org/W2148814575","https://openalex.org/W2152534166","https://openalex.org/W2153878586","https://openalex.org/W2161670720","https://openalex.org/W2166653928","https://openalex.org/W2171141994","https://openalex.org/W2322028936","https://openalex.org/W3012079654","https://openalex.org/W6634691070"],"related_works":["https://openalex.org/W2151009083","https://openalex.org/W1988328886","https://openalex.org/W2113286403","https://openalex.org/W3063015752","https://openalex.org/W1899066580","https://openalex.org/W1993873746","https://openalex.org/W2028961943","https://openalex.org/W2102326449","https://openalex.org/W2032099305","https://openalex.org/W2738322136"],"abstract_inverted_index":{"HLA-B*5701":[0,38,220],"is":[1,191],"the":[2,69,194,209],"host":[3],"factor":[4],"most":[5],"strongly":[6],"associated":[7],"with":[8,102,222],"slow":[9],"HIV-1":[10,27,57,106,187],"disease":[11,239],"progression,":[12],"although":[13],"risk":[14,32,237],"of":[15,33,56,72,80,83,120,238],"progression":[16,34,240],"may":[17],"vary":[18],"among":[19,163,241],"patients":[20],"carrying":[21,243],"this":[22,244],"allele.":[23,245],"The":[24,123,214],"interplay":[25],"between":[26,179],"evolutionary":[28],"rate":[29,189,218],"variation":[30],"and":[31,50,74,185],"to":[35,67,145,193,208,233],"AIDS":[36],"in":[37,89,113,135,147,153,165,219,236],"subjects":[39,164,221],"was":[40,128,177],"studied":[41],"using":[42,95],"longitudinal":[43],"viral":[44,84,91,124,148,195,201],"sequences":[45],"from":[46],"high-risk":[47],"progressors":[48,52],"(HRPs)":[49],"low-risk":[51],"(LRPs).":[53],"Posterior":[54],"distributions":[55],"genealogies":[58],"assuming":[59],"a":[60,96,132,173,230],"Bayesian":[61],"relaxed":[62],"molecular":[63],"clock":[64],"were":[65,100,110],"used":[66],"estimate":[68],"absolute":[70],"rates":[71,109],"nonsynonymous":[73],"synonymous":[75,107,136,188],"substitutions":[76],"for":[77,118],"different":[78],"set":[79],"branches.":[81,122],"Rates":[82],"evolution,":[85],"as":[86,88,150],"well":[87],"vitro":[90,154],"replication":[92,155,196,217],"capacity":[93],"assessed":[94],"novel":[97],"phenotypic":[98],"assay,":[99],"correlated":[101],"various":[103],"clinical":[104],"parameters.":[105],"substitution":[108],"significantly":[111],"lower":[112,216],"LRPs":[114,127],"than":[115],"HRPs,":[116],"especially":[117],"sets":[119],"internal":[121],"population":[125],"infecting":[126],"also":[129],"characterized":[130],"by":[131,152,161],"slower":[133],"increase":[134],"divergence":[137],"over":[138],"time.":[139],"This":[140],"pattern":[141],"did":[142],"not":[143],"correlate":[144],"differences":[146,162,235],"fitness,":[149],"measured":[151],"capacity,":[156],"nor":[157],"could":[158],"be":[159],"explained":[160],"T":[166,182,226],"cell":[167,183,227],"activation":[168],"or":[169],"selection":[170],"pressure.":[171],"Interestingly,":[172],"significant":[174],"inverse":[175],"correlation":[176],"found":[178],"baseline":[180,224],"CD4+":[181,225],"counts":[184,228],"mean":[186],"(which":[190],"proportional":[192],"rate)":[197],"along":[198],"branches":[199],"representing":[200],"lineages":[202],"successfully":[203],"propagating":[204],"through":[205],"time":[206,212],"up":[207],"last":[210],"sampled":[211],"point.":[213],"observed":[215],"higher":[223],"provides":[229],"potential":[231],"model":[232],"explain":[234],"individuals":[242]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
