{"doi":"10.1016/j.virol.2017.08.031","title":"Decoding noises in HIV computational genotyping","abstract":null,"journal":"Virology","year":2017,"id":591884,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":832956,"name":"Timothy Shaw","orcid":"0000-0002-2484-5724","position":1,"is_corresponding":false},{"id":799960,"name":"Xing Zhang","orcid":"0000-0003-4315-6980","position":2,"is_corresponding":false},{"id":88375,"name":"Dong Liu","orcid":"0000-0003-4154-8286","position":3,"is_corresponding":false},{"id":1103924,"name":"Ye Shen","orcid":"0000-0003-3410-6762","position":4,"is_corresponding":false},{"id":765551,"name":"Amara E. Ezeamama","orcid":"0000-0003-2164-8802","position":5,"is_corresponding":false},{"id":679014,"name":"Chunfu Yang","orcid":"0000-0001-7116-0501","position":6,"is_corresponding":false},{"id":354186,"name":"Ming Zhang","orcid":"0000-0002-2169-0755","position":7,"is_corresponding":false},{"id":1514443,"name":"MingRui Jia","orcid":null,"position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"Decoding noises in HIV computational genotyping","abstract":"Lack of a consistent and reliable genotyping system can critically impede HIV genomic research on pathogenesis, fitness, virulence, drug resistance, and genomic-based healthcare and treatment. At present, mis-genotyping, i.e., background noises in molecular genotyping, and its impact on epidemic surveillance is unknown. For the first time, we present a comprehensive assessment of HIV genotyping quality. HIV sequence data were retrieved from worldwide published records, and subjected to a systematic genotyping assessment pipeline. Results showed that mis-genotyped cases occurred at 4.6% globally, with some regional and high-risk population heterogeneities. Results also revealed a consistent mis-genotyping pattern in gp120 in all studied populations except the group of men who have sex with men. Our study also suggests novel virus diversities in the mis-genotyped cases. Finally, this study reemphasizes the importance of implementing a standardized genotyping pipeline to avoid genotyping disparity and to advance our understanding of virus evolution in various epidemiological settings.","is_dataset_classified":null,"base_score":0.0,"endowment":0.0,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"28918303","pmcid":"PMC6443101","openalex_id":"https://openalex.org/W2755824586","authors":[],"funders":[{"funder_name":"NIH","grant_id":"R03AI104258, R03AI120203","title":null},{"funder_name":"UGA Faculty Research","grant_id":"1025GR793002","title":null},{"funder_name":"NIAID NIH HHS","grant_id":"R03 AI120203","title":null},{"funder_name":"NIAID NIH HHS","grant_id":"R03 AI104258","title":null},{"funder_name":"Intramural CDC HHS","grant_id":"CC999999","title":null},{"funder_name":"ARCS Foundation","grant_id":"","title":null}],"total_grants":6,"fwci":0.0,"citation_percentile":0.09578878,"influential_citations":0,"citation_trend":[],"oa_status":"closed","license":"http://www.elsevier.com/open-access/userlicense/1.0/","oa_locations":[{"url":"https://api.elsevier.com/content/article/PII:S0042682217302945?httpAccept=text/xml","host_type":"publisher"},{"url":"https://api.elsevier.com/content/article/PII:S0042682217302945?httpAccept=text/plain","host_type":"publisher"},{"url":"https://doi.org/10.1016/j.virol.2017.08.031","host_type":"journal"},{"url":"https://pubmed.ncbi.nlm.nih.gov/28918303","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6443101","host_type":"repository"}],"fields_of_study":["HIV Research and Treatment","HIV/AIDS drug development and treatment","HIV/AIDS Research and Interventions"],"mesh_terms":["Diagnostic Errors","Genotype","HIV","Humans","Genetic Variation","Computational Biology","Genotyping Techniques"],"keywords":["Genotyping","Biology","Genetics","Population","Genotype","Computational biology","Gene","Medicine","Environmental health","HIV","Molecular Genotyping","Epidemic Surveillance"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Good health and well-being"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[{"name":"gen"}],"source":"live","citation_network_status":"fetched"},"created_at":"2026-07-26T11:11:11.731144Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}