{"id":"https://openalex.org/W4398228917","doi":"https://doi.org/10.1093/bioinformatics/btae327","title":"Incorporating temporal dynamics of mutations to enhance the prediction capability of antiretroviral therapy\u2019s outcome for HIV-1","display_name":"Incorporating temporal dynamics of mutations to enhance the prediction capability of antiretroviral therapy\u2019s outcome for HIV-1","publication_year":2024,"publication_date":"2024-05-20","ids":{"openalex":"https://openalex.org/W4398228917","doi":"https://doi.org/10.1093/bioinformatics/btae327","pmid":"https://pubmed.ncbi.nlm.nih.gov/38775719"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae327","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae327/57826411/btae327.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae327/57826411/btae327.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5074443891","display_name":"Giulia Di Teodoro","orcid":"https://orcid.org/0000-0002-0418-0067"},"institutions":[{"id":"https://openalex.org/I4210145295","display_name":"European Society of Concurrent Enterprising Network","ror":"https://ror.org/04yvrj177","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210145295"]},{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giulia Di Teodoro","raw_affiliation_strings":["Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome 00185, Italy","EuResist Network , Rome 00152, Italy","Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome, 00185, Rome, Italy","EuResist Network, 00152, Rome, Italy"],"raw_orcid":"https://orcid.org/0000-0002-0418-0067","affiliations":[{"raw_affiliation_string":"Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome 00185, Italy","institution_ids":["https://openalex.org/I861853513"]},{"raw_affiliation_string":"EuResist Network , Rome 00152, Italy","institution_ids":["https://openalex.org/I4210145295"]},{"raw_affiliation_string":"Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome, 00185, Rome, Italy","institution_ids":["https://openalex.org/I861853513"]},{"raw_affiliation_string":"EuResist Network, 00152, Rome, Italy","institution_ids":["https://openalex.org/I4210145295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029725058","display_name":"Martin Pirkl","orcid":"https://orcid.org/0000-0002-6986-0813"},"institutions":[{"id":"https://openalex.org/I180923762","display_name":"University of Cologne","ror":"https://ror.org/00rcxh774","country_code":"DE","type":"education","lineage":["https://openalex.org/I180923762"]},{"id":"https://openalex.org/I4210115305","display_name":"German Center for Infection Research","ror":"https://ror.org/028s4q594","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210115305","https://openalex.org/I4405256427"]},{"id":"https://openalex.org/I4210153755","display_name":"University Hospital Cologne","ror":"https://ror.org/05mxhda18","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210153755"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Martin Pirkl","raw_affiliation_strings":["German Center for Infection Research (DZIF) , Cologne 50935, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","German Center for Infection Research (DZIF), Partner Site Cologne-Bonn, 50935, Cologne, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany"],"raw_orcid":"https://orcid.org/0000-0002-6986-0813","affiliations":[{"raw_affiliation_string":"German Center for Infection Research (DZIF) , Cologne 50935, Germany","institution_ids":["https://openalex.org/I4210115305"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","institution_ids":["https://openalex.org/I4210153755"]},{"raw_affiliation_string":"German Center for Infection Research (DZIF), Partner Site Cologne-Bonn, 50935, Cologne, Germany","institution_ids":["https://openalex.org/I4210115305"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany","institution_ids":["https://openalex.org/I180923762","https://openalex.org/I4210153755"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014101140","display_name":"Francesca Incardona","orcid":"https://orcid.org/0000-0002-7386-8551"},"institutions":[{"id":"https://openalex.org/I102064193","display_name":"University of Siena","ror":"https://ror.org/01tevnk56","country_code":"IT","type":"education","lineage":["https://openalex.org/I102064193"]},{"id":"https://openalex.org/I4210145295","display_name":"European Society of Concurrent Enterprising Network","ror":"https://ror.org/04yvrj177","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210145295"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Francesca Incardona","raw_affiliation_strings":["Department of Medical Biotechnologies, University of Siena , Siena 53100, Italy","EuResist Network , Rome 00152, Italy","EuResist Network, 00152, Rome, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Biotechnologies, University of Siena , Siena 53100, Italy","institution_ids":["https://openalex.org/I102064193"]},{"raw_affiliation_string":"EuResist Network , Rome 00152, Italy","institution_ids":["https://openalex.org/I4210145295"]},{"raw_affiliation_string":"EuResist Network, 00152, Rome, Italy","institution_ids":["https://openalex.org/I4210145295"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032859619","display_name":"Ilaria Vicenti","orcid":"https://orcid.org/0000-0002-4306-2960"},"institutions":[{"id":"https://openalex.org/I102064193","display_name":"University of Siena","ror":"https://ror.org/01tevnk56","country_code":"IT","type":"education","lineage":["https://openalex.org/I102064193"]},{"id":"https://openalex.org/I4210166800","display_name":"Intelligence for Environment and Security (Italy)","ror":"https://ror.org/05ve3t520","country_code":"IT","type":"company","lineage":["https://openalex.org/I4210166800"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Ilaria Vicenti","raw_affiliation_strings":["I-PRO , Rome 00152, Italy","Department of Medical Biotechnologies, University of Siena, 53100, Siena, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"I-PRO , Rome 00152, Italy","institution_ids":["https://openalex.org/I4210166800"]},{"raw_affiliation_string":"Department of Medical Biotechnologies, University of Siena, 53100, Siena, Italy","institution_ids":["https://openalex.org/I102064193"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034073363","display_name":"Anders S\u00f6nnerborg","orcid":"https://orcid.org/0000-0001-8928-3374"},"institutions":[{"id":"https://openalex.org/I1335113835","display_name":"Karolinska University Hospital","ror":"https://ror.org/00m8d6786","country_code":"SE","type":"healthcare","lineage":["https://openalex.org/I1335113835"]},{"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":"Anders S\u00f6nnerborg","raw_affiliation_strings":["Department of Infectious Diseases, Karolinska University Hospital , Stockholm 14186, Sweden","Department of Medicine Huddinge, Karolinska Institutet, Division of Infectious Diseases , Stockholm 14152, Sweden","Department of Infectious Diseases, Karolinska University Hospital, 14186, Stockholm, Sweden"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Infectious Diseases, Karolinska University Hospital , Stockholm 14186, Sweden","institution_ids":["https://openalex.org/I1335113835"]},{"raw_affiliation_string":"Department of Medicine Huddinge, Karolinska Institutet, Division of Infectious Diseases , Stockholm 14152, Sweden","institution_ids":["https://openalex.org/I28166907"]},{"raw_affiliation_string":"Department of Infectious Diseases, Karolinska University Hospital, 14186, Stockholm, Sweden","institution_ids":["https://openalex.org/I1335113835"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074420045","display_name":"Rolf Kaiser","orcid":"https://orcid.org/0000-0002-2640-2548"},"institutions":[{"id":"https://openalex.org/I180923762","display_name":"University of Cologne","ror":"https://ror.org/00rcxh774","country_code":"DE","type":"education","lineage":["https://openalex.org/I180923762"]},{"id":"https://openalex.org/I4210115305","display_name":"German Center for Infection Research","ror":"https://ror.org/028s4q594","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210115305","https://openalex.org/I4405256427"]},{"id":"https://openalex.org/I4210153755","display_name":"University Hospital Cologne","ror":"https://ror.org/05mxhda18","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210153755"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Rolf Kaiser","raw_affiliation_strings":["German Center for Infection Research (DZIF) , Cologne 50935, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","German Center for Infection Research (DZIF), Partner Site Cologne-Bonn, 50935, Cologne, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany"],"raw_orcid":"https://orcid.org/0000-0002-2640-2548","affiliations":[{"raw_affiliation_string":"German Center for Infection Research (DZIF) , Cologne 50935, Germany","institution_ids":["https://openalex.org/I4210115305"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","institution_ids":["https://openalex.org/I4210153755"]},{"raw_affiliation_string":"German Center for Infection Research (DZIF), Partner Site Cologne-Bonn, 50935, Cologne, Germany","institution_ids":["https://openalex.org/I4210115305"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany","institution_ids":["https://openalex.org/I180923762","https://openalex.org/I4210153755"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002827275","display_name":"Laura Palagi","orcid":"https://orcid.org/0000-0002-9496-6097"},"institutions":[{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Laura Palagi","raw_affiliation_strings":["Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome 00185, Italy","Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome, 00185, Rome, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome , Rome 00185, Italy","institution_ids":["https://openalex.org/I861853513"]},{"raw_affiliation_string":"Department of Computer Control and Management Engineering Antonio Ruberti, Sapienza University of Rome, 00185, Rome, Italy","institution_ids":["https://openalex.org/I861853513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002487044","display_name":"Maurizio Zazzi","orcid":"https://orcid.org/0000-0002-0344-6281"},"institutions":[{"id":"https://openalex.org/I102064193","display_name":"University of Siena","ror":"https://ror.org/01tevnk56","country_code":"IT","type":"education","lineage":["https://openalex.org/I102064193"]},{"id":"https://openalex.org/I4210166800","display_name":"Intelligence for Environment and Security (Italy)","ror":"https://ror.org/05ve3t520","country_code":"IT","type":"company","lineage":["https://openalex.org/I4210166800"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Maurizio Zazzi","raw_affiliation_strings":["I-PRO , Rome 00152, Italy","Department of Medical Biotechnologies, University of Siena, 53100, Siena, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"I-PRO , Rome 00152, Italy","institution_ids":["https://openalex.org/I4210166800"]},{"raw_affiliation_string":"Department of Medical Biotechnologies, University of Siena, 53100, Siena, Italy","institution_ids":["https://openalex.org/I102064193"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023556977","display_name":"Thomas Lengauer","orcid":"https://orcid.org/0000-0003-3801-2640"},"institutions":[{"id":"https://openalex.org/I180923762","display_name":"University of Cologne","ror":"https://ror.org/00rcxh774","country_code":"DE","type":"education","lineage":["https://openalex.org/I180923762"]},{"id":"https://openalex.org/I4210109712","display_name":"Max Planck Institute for Informatics","ror":"https://ror.org/01w19ak89","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210109712"]},{"id":"https://openalex.org/I4210153755","display_name":"University Hospital Cologne","ror":"https://ror.org/05mxhda18","country_code":"DE","type":"healthcare","lineage":["https://openalex.org/I4210153755"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Thomas Lengauer","raw_affiliation_strings":["Computational Biology, Max Planck Institute for Informatics , Saarbr\u00fccken 66123, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany"],"raw_orcid":"https://orcid.org/0000-0003-3801-2640","affiliations":[{"raw_affiliation_string":"Computational Biology, Max Planck Institute for Informatics , Saarbr\u00fccken 66123, Germany","institution_ids":["https://openalex.org/I4210109712"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne , Cologne 50935, Germany","institution_ids":["https://openalex.org/I4210153755"]},{"raw_affiliation_string":"Institute of Virology, Faculty of Medicine and University Hospital Cologne, University of Cologne, 50935, Cologne, Germany","institution_ids":["https://openalex.org/I180923762","https://openalex.org/I4210153755"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5074443891"],"corresponding_institution_ids":["https://openalex.org/I4210145295","https://openalex.org/I861853513"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.8191,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.8442835,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"40","issue":"6","first_page":null,"last_page":null},"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":0.5248000025749207,"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":0.5248000025749207,"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/T10112","display_name":"HIV Research and Treatment","score":0.22370000183582306,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.041099999099969864,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/antiretroviral-therapy","display_name":"Antiretroviral therapy","score":0.6205865740776062},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.6022395491600037},{"id":"https://openalex.org/keywords/outcome","display_name":"Outcome (game theory)","score":0.5769560933113098},{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.5703126192092896},{"id":"https://openalex.org/keywords/viral-load","display_name":"Viral load","score":0.511013388633728},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4663298428058624},{"id":"https://openalex.org/keywords/drug-resistance","display_name":"Drug resistance","score":0.4234326481819153},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.41679781675338745},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.37822583317756653},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3487005829811096},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.30188876390457153},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.2864381670951843},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2501961588859558},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1909920573234558},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1239098310470581},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11342984437942505}],"concepts":[{"id":"https://openalex.org/C2993143319","wikidata":"https://www.wikidata.org/wiki/Q583050","display_name":"Antiretroviral therapy","level":4,"score":0.6205865740776062},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.6022395491600037},{"id":"https://openalex.org/C148220186","wikidata":"https://www.wikidata.org/wiki/Q7111912","display_name":"Outcome (game theory)","level":2,"score":0.5769560933113098},{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.5703126192092896},{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.511013388633728},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4663298428058624},{"id":"https://openalex.org/C114851261","wikidata":"https://www.wikidata.org/wiki/Q12147416","display_name":"Drug resistance","level":2,"score":0.4234326481819153},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.41679781675338745},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.37822583317756653},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3487005829811096},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.30188876390457153},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.2864381670951843},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2501961588859558},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1909920573234558},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1239098310470581},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11342984437942505},{"id":"https://openalex.org/C144237770","wikidata":"https://www.wikidata.org/wiki/Q747534","display_name":"Mathematical economics","level":1,"score":0.0}],"mesh":[{"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":"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":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","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":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000188","qualifier_name":"drug therapy","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016896","descriptor_name":"Treatment Outcome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019380","descriptor_name":"Anti-HIV Agents","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"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},{"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":5,"locations":[{"id":"doi:10.1093/bioinformatics/btae327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae327","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae327/57826411/btae327.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:38775719","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38775719","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},{"id":"pmh:oai:iris.uniroma1.it:11573/1697819","is_oa":true,"landing_page_url":"https://hdl.handle.net/11573/1697819","pdf_url":"https://iris.uniroma1.it/bitstream/11573/1697819/1/DiTeodoro_Incorporating_2024.pdf","source":{"id":"https://openalex.org/S4377196107","display_name":"IRIS Research product catalog (Sapienza University of Rome)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:usiena-air.unisi.it:11365/1263678","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11153833/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11153833/pdf/btae327.pdf","source":{"id":"https://openalex.org/S4377196319","display_name":"Use Siena air (University of Siena)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I102064193","host_organization_name":"University of Siena","host_organization_lineage":["https://openalex.org/I102064193"],"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":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11153833","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11153833","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae327","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae327/57826411/btae327.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.7799999713897705}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4398228917.pdf"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W14725960","https://openalex.org/W95648324","https://openalex.org/W1618905105","https://openalex.org/W1976632658","https://openalex.org/W1977852362","https://openalex.org/W1988215875","https://openalex.org/W2009467617","https://openalex.org/W2027898836","https://openalex.org/W2036836781","https://openalex.org/W2063159959","https://openalex.org/W2069388608","https://openalex.org/W2074877586","https://openalex.org/W2096504879","https://openalex.org/W2101654079","https://openalex.org/W2105712999","https://openalex.org/W2106720283","https://openalex.org/W2131218326","https://openalex.org/W2182593161","https://openalex.org/W2187165435","https://openalex.org/W2227151527","https://openalex.org/W2492794003","https://openalex.org/W2509030308","https://openalex.org/W2541643513","https://openalex.org/W2606694963","https://openalex.org/W2625924212","https://openalex.org/W2739715939","https://openalex.org/W2808227723","https://openalex.org/W2972331992","https://openalex.org/W3194787922","https://openalex.org/W4225374262","https://openalex.org/W4229081669","https://openalex.org/W4236190976","https://openalex.org/W4252684946","https://openalex.org/W4297008847","https://openalex.org/W4310953850","https://openalex.org/W4366829110","https://openalex.org/W6603940800","https://openalex.org/W6636501900","https://openalex.org/W6639213037","https://openalex.org/W6686825414"],"related_works":["https://openalex.org/W4288713694","https://openalex.org/W2978999882","https://openalex.org/W2087771447","https://openalex.org/W2614902832","https://openalex.org/W2055280854","https://openalex.org/W2334605091","https://openalex.org/W2973584526","https://openalex.org/W2036827172","https://openalex.org/W4280642433","https://openalex.org/W4302367648"],"abstract_inverted_index":{"MOTIVATION:":[0],"In":[1],"predicting":[2],"HIV":[3,135],"therapy":[4],"outcomes,":[5],"a":[6,57,76,96],"critical":[7],"clinical":[8],"question":[9],"is":[10,170],"whether":[11,30],"using":[12,84,179],"historical":[13,31,119,141,168],"information":[14,86,169],"can":[15,52,201],"enhance":[16],"predictive":[17,112],"capabilities":[18],"compared":[19],"with":[20,81,95,193],"current":[21],"or":[22],"latest":[23,195],"available":[24],"data":[25],"analysis.":[26],"This":[27,175],"study":[28,192],"analyses":[29],"knowledge,":[32],"which":[33,200],"includes":[34],"viral":[35,49],"mutations":[36],"detected":[37],"in":[38,151],"all":[39],"genotypic":[40],"tests":[41],"before":[42],"therapy,":[43],"their":[44],"temporal":[45,149],"occurrence,":[46],"and":[47,67],"concomitant":[48],"load":[50],"measurements,":[51],"bring":[53],"improvements.":[54],"We":[55,74],"introduce":[56],"method":[58],"to":[59,130],"weigh":[60],"mutations,":[61],"considering":[62],"the":[63,68,102,125,146,180,194,198,207],"previously":[64],"enumerated":[65],"factors":[66],"reference":[69],"mutation-drug":[70],"Stanford":[71],"resistance":[72],"tables.":[73],"compare":[75],"model":[77],"encompassing":[78],"history":[79],"(H)":[80],"one":[82],"not":[83],"this":[85,191],"(NH).":[87],"RESULTS:":[88],"The":[89,121,143],"H-model":[90,126],"demonstrates":[91],"superior":[92],"discriminative":[93],"ability,":[94],"higher":[97],"ROC-AUC":[98],"score":[99],"(76.34%)":[100],"than":[101],"NH-model":[103],"(74.98%).":[104],"Wilcoxon":[105],"test":[106],"results":[107],"confirm":[108],"significant":[109],"improvement":[110],"of":[111,124,133,148,197],"accuracy":[113,161],"for":[114],"treatment":[115],"outcomes":[116],"through":[117,206],"incorporating":[118],"information.":[120,142],"increased":[122],"performance":[123],"might":[127],"be":[128,202],"attributed":[129],"its":[131],"consideration":[132],"latent":[134],"reservoirs,":[136],"probably":[137],"obtained":[138],"when":[139,166],"leveraging":[140],"findings":[144],"emphasize":[145],"importance":[147],"dynamics":[150],"acquiring":[152],"mutations.":[153],"However,":[154],"our":[155],"result":[156],"also":[157],"shows":[158],"that":[159],"prediction":[160],"remains":[162],"relatively":[163],"high":[164],"even":[165],"no":[167],"available.":[171],"AVAILABILITY":[172],"AND":[173],"IMPLEMENTATION:":[174],"analysis":[176],"was":[177],"conducted":[178],"Euresist":[181,208],"Integrated":[182],"DataBase":[183],"(EIDB).":[184],"For":[185],"further":[186],"validation,":[187],"we":[188],"encourage":[189],"reproducing":[190],"release":[196],"EIDB,":[199],"accessed":[203],"upon":[204],"request":[205],"Network.":[209]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-28T07:46:37.118299","created_date":"2025-10-10T00:00:00"}
