Causes of evolutionary rate variation among protein sites
It has long been recognized that certain sites within a protein, such as sites in the protein
core or catalytic residues in enzymes, are evolutionarily more conserved than other sites …
core or catalytic residues in enzymes, are evolutionarily more conserved than other sites …
HIV-1 adaptation to HLA: a window into virus–host immune interactions
HIV-1 develops specific mutations within its genome that allow it to escape detection by
human leukocyte antigen (HLA) class I-restricted immune responses, notably those of CD8+ …
human leukocyte antigen (HLA) class I-restricted immune responses, notably those of CD8+ …
Increased HIV-1 vaccine efficacy against viruses with genetic signatures in Env V2
The RV144 trial demonstrated 31% vaccine efficacy at preventing human immunodeficiency
virus (HIV)-1 infection. Antibodies against the HIV-1 envelope variable loops 1 and 2 (Env …
virus (HIV)-1 infection. Antibodies against the HIV-1 envelope variable loops 1 and 2 (Env …
Influence of HLA-C expression level on HIV control
A variant upstream of human leukocyte antigen C (HLA-C) shows the most significant
genome-wide effect on HIV control in European Americans and is also associated with the …
genome-wide effect on HIV control in European Americans and is also associated with the …
HIV-1 adaptation to NK-cell-mediated immune pressure
G Alter, D Heckerman, A Schneidewind, L Fadda… - Nature, 2011 - nature.com
Natural killer (NK) cells have an important role in the control of viral infections, recognizing
virally infected cells through a variety of activating and inhibitory receptors,,. Epidemiological …
virally infected cells through a variety of activating and inhibitory receptors,,. Epidemiological …
Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection
MR Henn, CL Boutwell, P Charlebois… - PLoS …, 2012 - journals.plos.org
Deep sequencing technologies have the potential to transform the study of highly variable
viral pathogens by providing a rapid and cost-effective approach to sensitively characterize …
viral pathogens by providing a rapid and cost-effective approach to sensitively characterize …
Selection bias at the heterosexual HIV-1 transmission bottleneck
JM Carlson, M Schaefer, DC Monaco, R Batorsky… - Science, 2014 - science.org
Introduction Heterosexual HIV-1 transmission is an inefficient process with rates reported at<
1% per unprotected sexual exposure. When transmission occurs, systemic infection is …
1% per unprotected sexual exposure. When transmission occurs, systemic infection is …
HLA-associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins
Background Despite the extensive genetic diversity of HIV-1, viral evolution in response to
immune selective pressures follows broadly predictable mutational patterns. Sites and …
immune selective pressures follows broadly predictable mutational patterns. Sites and …
Correction for hidden confounders in the genetic analysis of gene expression
Understanding the genetic underpinnings of disease is important for screening, treatment,
drug development, and basic biological insight. One way of getting at such an …
drug development, and basic biological insight. One way of getting at such an …
A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
HIV-1 sequence diversity is affected by selection pressures arising from host genomic
factors. Using paired human and viral data from 1071 individuals, we ran> 3000 genome …
factors. Using paired human and viral data from 1071 individuals, we ran> 3000 genome …