Mathematical modeling of escape of HIV from cytotoxic T lymphocyte responses

The Dynamics of HIV-1 Adaptation in Early Infection

(2011) J. da Silva   GENETICS

Distinguishing Driver and Passenger Mutations in an Evolutionary History Categorized by Interference

(2011) Christopher J. R. Illingworth et al.   GENETICS

Genetic Draft and Quasi-Neutrality in Large Facultatively Sexual Populations

(2011) R. A. Neher et al.   GENETICS

Fitness Costs and Diversity of the Cytotoxic T Lymphocyte (CTL) Response Determine the Rate of CTL Escape during Acute and Chronic Phases of HIV Infection

(2011) V. V. Ganusov et al.   JOURNAL OF VIROLOGY

Taking Multiple Infections of Cells and Recombination into Account Leads to Small Within-Host Effective-Population-Size Estimates of HIV-1

(2011) Rajesh Balagam et al.   PLoS One

Cross-Sectional Detection of Acute HIV Infection: Timing of Transmission, Inflammation and Antiretroviral Therapy

(2011) Cynthia Gay et al.   PLoS One

Estimate of effective recombination rate and average selection coefficient for HIV in chronic infection

(2011) R. Batorsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Majority of CD4+ T cells from peripheral blood of HIV-1-infected individuals contain only one HIV DNA molecule

(2011) L. Josefsson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Statistical genetics and evolution of quantitative traits

(2011) Richard A. Neher et al.   REVIEWS OF MODERN PHYSICS

Functional dissection of the granzyme family: cell death and inflammation

(2010) Desiree A. Anthony et al.   IMMUNOLOGICAL REVIEWS

Estimation of the Initial Viral Growth Rate and Basic Reproductive Number during Acute HIV-1 Infection

(2010) R. M. Ribeiro et al.   JOURNAL OF VIROLOGY

Transmission of Single HIV-1 Genomes and Dynamics of Early Immune Escape Revealed by Ultra-Deep Sequencing

(2010) Will Fischer et al.   PLoS One

Recombination Rate and Selection Strength in HIV Intra-patient Evolution

(2010) Richard A. Neher et al.   PLoS Computational Biology

CD8+ Lymphocytes Control Viral Replication in SIVmac239-Infected Rhesus Macaques without Decreasing the Lifespan of Productively Infected Cells

(2010) Nichole R. Klatt et al.   PLoS Pathogens

In Vivo CD8+ T-Cell Suppression of SIV Viremia Is Not Mediated by CTL Clearance of Productively Infected Cells

(2010) Joseph K. Wong et al.   PLoS Pathogens

Rate of Adaptation in Large Sexual Populations

(2009) R. A. Neher et al.   GENETICS

The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection

(2009) Nilu Goonetilleke et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Kinetics of Expansion of Epitope-Specific T Cell Responses during Primary HIV-1 Infection

(2009) E. L. Turnbull et al.   JOURNAL OF IMMUNOLOGY

Rapid Dissociation of HIV-1 from Cultured Cells Severely Limits Infectivity Assays, Causes the Inactivation Ascribed to Entry Inhibitors, and Masks the Inherently High Level of Infectivity of Virions

(2009) E. J. Platt et al.   JOURNAL OF VIROLOGY

Pathogen evasion strategies for the major histocompatibility complex class I assembly pathway

(2008) Antony N. Antoniou et al.   IMMUNOLOGY

Induction of Plasma (TRAIL), TNFR-2, Fas Ligand, and Plasma Microparticles after Human Immunodeficiency Virus Type 1 (HIV-1) Transmission: Implications for HIV-1 Vaccine Design

(2008) N. Gasper-Smith et al.   JOURNAL OF VIROLOGY

Functional Consequences of Human Immunodeficiency Virus Escape from an HLA-B*13-Restricted CD8+ T-Cell Epitope in p1 Gag Protein

(2008) J. G. Prado et al.   JOURNAL OF VIROLOGY

Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection

(2008) B. F. Keele et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA