{"id":"https://openalex.org/W2132774750","doi":"https://doi.org/10.1093/bioinformatics/btm540","title":"Estimation of an <i>in vivo</i> fitness landscape experienced by HIV-1 under drug selective pressure useful for prediction of drug resistance evolution during treatment","display_name":"Estimation of an <i>in vivo</i> fitness landscape experienced by HIV-1 under drug selective pressure useful for prediction of drug resistance evolution during treatment","publication_year":2007,"publication_date":"2007-11-17","ids":{"openalex":"https://openalex.org/W2132774750","doi":"https://doi.org/10.1093/bioinformatics/btm540","mag":"2132774750","pmid":"https://pubmed.ncbi.nlm.nih.gov/18024973"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btm540","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm540","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081337249","display_name":"Koen Deforche","orcid":"https://orcid.org/0000-0003-3898-9494"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"K. Deforche","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040598007","display_name":"Ricardo Camacho","orcid":"https://orcid.org/0000-0002-9129-3237"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"R. Camacho","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017745729","display_name":"Kristel Van Laethem","orcid":"https://orcid.org/0000-0001-6036-2271"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"K. Van Laethem","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039280845","display_name":"Philippe Lemey","orcid":"https://orcid.org/0000-0003-2826-5353"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"P. Lemey","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083534383","display_name":"Andrew Rambaut","orcid":"https://orcid.org/0000-0003-4337-3707"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"A. Rambaut","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041984163","display_name":"Yves Moreau","orcid":"https://orcid.org/0000-0002-4647-6560"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"Y. Moreau","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065034994","display_name":"Anne\u2010Mieke Vandamme","orcid":"https://orcid.org/0000-0002-6594-2766"},"institutions":[{"id":"https://openalex.org/I24156275","display_name":"Rega Institute for Medical Research","ror":"https://ror.org/03w5j8p12","country_code":"BE","type":"facility","lineage":["https://openalex.org/I24156275"]},{"id":"https://openalex.org/I4210106487","display_name":"Hospital de Egas Moniz","ror":"https://ror.org/012habm93","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210106487"]},{"id":"https://openalex.org/I4210122709","display_name":"Hospital de Santa Cruz","ror":"https://ror.org/02r581p42","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210122709"]},{"id":"https://openalex.org/I4210124394","display_name":"Centro Hospitalar de Lisboa Ocidental","ror":"https://ror.org/036ypft38","country_code":"PT","type":"healthcare","lineage":["https://openalex.org/I4210124394"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","PT"],"is_corresponding":false,"raw_author_name":"A.-M. Vandamme","raw_affiliation_strings":["1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium, 2Centro Hospitalar de Lisboa Ocidental, Lisbon, Portugal, 3Department of Zoology, Oxford University, Oxford, 4Institute for Evolutionary Biology, University of Edinburgh, Edinburgh, UK and 5ESAT, Katholieke Universiteit Leuven, Leuven, Belgium","institution_ids":["https://openalex.org/I99464096","https://openalex.org/I4210122709","https://openalex.org/I4210124394","https://openalex.org/I24156275","https://openalex.org/I4210106487"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.7747,"has_fulltext":false,"cited_by_count":35,"citation_normalized_percentile":{"value":0.83711132,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"24","issue":"1","first_page":"34","last_page":"41"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10526","display_name":"HIV/AIDS drug development and treatment","score":0.9541000127792358,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10526","display_name":"HIV/AIDS drug development and treatment","score":0.9541000127792358,"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.0272000003606081,"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/T10112","display_name":"HIV Research and Treatment","score":0.008999999612569809,"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/nelfinavir","display_name":"Nelfinavir","score":0.9563241004943848},{"id":"https://openalex.org/keywords/fitness-landscape","display_name":"Fitness landscape","score":0.5532523989677429},{"id":"https://openalex.org/keywords/in-vivo","display_name":"In vivo","score":0.5169031620025635},{"id":"https://openalex.org/keywords/drug-resistance","display_name":"Drug resistance","score":0.49476832151412964},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.45160990953445435},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.41755300760269165},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3742639422416687},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36995816230773926},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.3329033851623535},{"id":"https://openalex.org/keywords/viral-load","display_name":"Viral load","score":0.2700722813606262},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2484433650970459},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.19421586394309998}],"concepts":[{"id":"https://openalex.org/C2781160516","wikidata":"https://www.wikidata.org/wiki/Q423366","display_name":"Nelfinavir","level":5,"score":0.9563241004943848},{"id":"https://openalex.org/C91852762","wikidata":"https://www.wikidata.org/wiki/Q3307742","display_name":"Fitness landscape","level":3,"score":0.5532523989677429},{"id":"https://openalex.org/C207001950","wikidata":"https://www.wikidata.org/wiki/Q141124","display_name":"In vivo","level":2,"score":0.5169031620025635},{"id":"https://openalex.org/C114851261","wikidata":"https://www.wikidata.org/wiki/Q12147416","display_name":"Drug resistance","level":2,"score":0.49476832151412964},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.45160990953445435},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.41755300760269165},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3742639422416687},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36995816230773926},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.3329033851623535},{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.2700722813606262},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2484433650970459},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.19421586394309998},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0},{"id":"https://openalex.org/C2993143319","wikidata":"https://www.wikidata.org/wiki/Q583050","display_name":"Antiretroviral therapy","level":4,"score":0.0}],"mesh":[{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000187","qualifier_name":"drug effects","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":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012641","descriptor_name":"Selection, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000187","qualifier_name":"drug effects","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":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000008","qualifier_name":"administration & dosage","is_major_topic":false},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D024882","descriptor_name":"Drug Resistance, Viral","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btm540","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm540","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:18024973","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18024973","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.8600000143051147,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W114071939","https://openalex.org/W1849349695","https://openalex.org/W2013115302","https://openalex.org/W2015228718","https://openalex.org/W2024997496","https://openalex.org/W2067419109","https://openalex.org/W2097847166","https://openalex.org/W2102174602","https://openalex.org/W2106197195","https://openalex.org/W2107172785","https://openalex.org/W2108670087","https://openalex.org/W2111988768","https://openalex.org/W2128260028","https://openalex.org/W2130372421","https://openalex.org/W2139185068","https://openalex.org/W2140382319","https://openalex.org/W2144413761","https://openalex.org/W2144729871","https://openalex.org/W2147413871","https://openalex.org/W2150654191","https://openalex.org/W2154901255","https://openalex.org/W2157053750","https://openalex.org/W2172028557","https://openalex.org/W2610167300","https://openalex.org/W3217097258","https://openalex.org/W4236479494","https://openalex.org/W6679324440"],"related_works":["https://openalex.org/W4250669598","https://openalex.org/W2084457722","https://openalex.org/W2108009856","https://openalex.org/W4249027025","https://openalex.org/W2024957176","https://openalex.org/W2019814509","https://openalex.org/W2317545834","https://openalex.org/W2128885564","https://openalex.org/W2161908322","https://openalex.org/W2078196676"],"abstract_inverted_index":{"MOTIVATION:":[0],"HIV-1":[1,73],"antiviral":[2,9],"resistance":[3,140],"is":[4,182],"a":[5,49],"major":[6],"cause":[7],"of":[8,23,35,62,126],"treatment":[10,24,40,77,109,122,171],"failure.":[11],"The":[12,88,116,180],"in":[13,21,26,99,138,142,155,166],"vivo":[14,167],"fitness":[15,54,118,124,133],"landscape":[16,55],"experienced":[17],"by":[18,65],"the":[19,33,36,39,42,68,105,111,137,187],"virus":[20,37],"presence":[22],"could":[25],"principle":[27],"be":[28],"used":[29],"to":[30,38,45,51,80],"determine":[31],"both":[32],"susceptibility":[34],"and":[41,102,153,189],"genetic":[43,59],"barrier":[44],"resistance.":[46],"We":[47],"propose":[48],"method":[50,89],"estimate":[52],"this":[53],"from":[56,76,85,186,194],"cross-sectional":[57],"clinical":[58],"sequence":[60],"data":[61,190],"different":[63],"subtypes,":[64],"reverse":[66],"engineering":[67],"required":[69],"selective":[70,97,106,160],"pressure":[71,107,161],"for":[72,92,103,172],"sequences":[74,83],"obtained":[75,84],"naive":[78],"patients,":[79],"evolve":[81],"towards":[82],"treated":[86],"patients.":[87],"was":[90],"evaluated":[91],"recovering":[93],"10":[94],"random":[95],"fictive":[96],"pressures":[98],"simulation":[100],"experiments,":[101],"modeling":[104],"under":[108,120,158],"with":[110,136,164],"protease":[112],"inhibitor":[113],"nelfinavir.":[114],"RESULTS:":[115],"estimated":[117],"function":[119],"nelfinavir":[121,159,170],"considered":[123],"contributions":[125],"114":[127],"mutations":[128,174],"at":[129],"48":[130],"sites.":[131],"Estimated":[132],"correlated":[134,162],"significantly":[135,163],"vitro":[139],"phenotype":[141],"519":[143],"matched":[144],"genotype-phenotype":[145],"pairs":[146],"(R(2)":[147],"=":[148,177],"0.47":[149],"(0.41":[150],"-":[151],"0.54))":[152],"variation":[154],"predicted":[156],"evolution":[157,168],"observed":[165],"during":[169],"39":[173],"(with":[175],"FDR":[176],"0.05).":[178],"AVAILABILITY:":[179],"software":[181],"available":[183,193],"on":[184],"request":[185],"authors,":[188],"sets":[191],"are":[192],"http://jose.med.kuleuven.be/~kdforc0/nfv-fitness-data/.":[195]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":6}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2016-06-24T00:00:00"}
