Automating HIV drug resistance genotyping with RECall, a freely accessible sequence analysis tool
CK Woods, CJ Brumme, TF Liu, CKS Chui… - Journal of clinical …, 2012 - Am Soc Microbiol
Genotypic HIV drug resistance testing is routinely used to guide clinical decisions. While
genotyping methods can be standardized, a slow, labor-intensive, and subjective manual …
genotyping methods can be standardized, a slow, labor-intensive, and subjective manual …
Performance of HIV-1 drug resistance testing at low-level viremia and its ability to predict future virologic outcomes and viral evolution in treatment-naive individuals
A Gonzalez-Serna, JE Min, C Woods… - Clinical infectious …, 2014 - academic.oup.com
Background. Low-level viremia (LLV; human immunodeficiency virus [HIV-1] RNA 50–999
copies/mL) occurs frequently in patients receiving antiretroviral therapy (ART), but there are …
copies/mL) occurs frequently in patients receiving antiretroviral therapy (ART), but there are …
Uncommon pathways of immune escape attenuate HIV-1 integrase replication capacity
An attenuation of the HIV-1 replication capacity (RC) has been observed for immune-
mediated escape mutations in Gag restricted by protective HLA alleles. However, the extent …
mediated escape mutations in Gag restricted by protective HLA alleles. However, the extent …
Factors influencing the sensitivity and specificity of conventional sequencing in human immunodeficiency virus type 1 tropism testing
DJHF Knapp, RA McGovern, W Dong… - Journal of Clinical …, 2013 - Am Soc Microbiol
Human immunodeficiency virus type 1 (HIV-1) V3 loop sequence can be used to infer viral
coreceptor use. The effect of input copy number on population-based sequencing of the V3 …
coreceptor use. The effect of input copy number on population-based sequencing of the V3 …
“Dynamic Range” of Inferred Phenotypic HIV Drug Resistance Values in Clinical Practice
LC Swenson, G Pollock, B Wynhoven, T Mo, W Dong… - PloS one, 2011 - journals.plos.org
Background 'Virtual'or inferred phenotypes (vPhenotypes) are commonly used to assess
resistance to antiretroviral agents in patients failing therapy. In this study, we provide a …
resistance to antiretroviral agents in patients failing therapy. In this study, we provide a …