Published in Bull Math Biol on May 16, 2006
Dynamic variation in cycling of hematopoietic stem cells in steady state and inflammation. J Exp Med (2011) 2.18
Systems biology in immunology: a computational modeling perspective. Annu Rev Immunol (2011) 2.15
A model of immune regulation as a consequence of randomized lymphocyte division and death times. Proc Natl Acad Sci U S A (2007) 1.57
Transient viremia, plasma viral load, and reservoir replenishment in HIV-infected patients on antiretroviral therapy. J Acquir Immune Defic Syndr (2007) 1.54
Modeling HIV persistence, the latent reservoir, and viral blips. J Theor Biol (2009) 1.49
Single-cell analysis of CD4+ T-cell differentiation reveals three major cell states and progressive acceleration of proliferation. Genome Biol (2016) 1.48
A single-cell pedigree analysis of alternative stochastic lymphocyte fates. Proc Natl Acad Sci U S A (2009) 1.42
Quantifying T lymphocyte turnover. J Theor Biol (2013) 1.35
Numerical modelling of label-structured cell population growth using CFSE distribution data. Theor Biol Med Model (2007) 1.25
Estimation of cell proliferation dynamics using CFSE data. Bull Math Biol (2010) 1.18
An age-dependent branching process model for the analysis of CFSE-labeling experiments. Biol Direct (2010) 1.01
Reconstruction of cell population dynamics using CFSE. BMC Bioinformatics (2007) 0.99
Stochastic models of lymphocyte proliferation and death. PLoS One (2010) 0.96
Evaluation of multitype mathematical models for CFSE-labeling experiment data. Bull Math Biol (2011) 0.95
A new model for the estimation of cell proliferation dynamics using CFSE data. J Immunol Methods (2011) 0.95
Quantitative analysis of T cell homeostatic proliferation. Cell Immunol (2008) 0.93
A mechanistic model for bromodeoxyuridine dilution naturally explains labelling data of self-renewing T cell populations. J R Soc Interface (2012) 0.92
Comparing the kinetics of NK cells, CD4, and CD8 T cells in murine cytomegalovirus infection. J Immunol (2011) 0.91
Dynamic models of immune responses: what is the ideal level of detail? Theor Biol Med Model (2010) 0.89
Quantifying the length and variance of the eukaryotic cell cycle phases by a stochastic model and dual nucleoside pulse labelling. PLoS Comput Biol (2014) 0.87
FlowMax: A Computational Tool for Maximum Likelihood Deconvolution of CFSE Time Courses. PLoS One (2013) 0.86
Interpreting CFSE obtained division histories of B cells in vitro with Smith-Martin and cyton type models. Bull Math Biol (2009) 0.85
Model with two types of CTL regulation and experiments on CTL dynamics. J Theor Biol (2009) 0.83
Clonally diverse T cell homeostasis is maintained by a common program of cell-cycle control. J Immunol (2013) 0.83
Two-compartment model of NK cell proliferation: insights from population response to IL-15 stimulation. J Immunol (2012) 0.82
Getting started in computational immunology. PLoS Comput Biol (2008) 0.81
A new model to simulate and analyze proliferating cell populations in BrdU labeling experiments. BMC Syst Biol (2013) 0.77
A novel statistical analysis and interpretation of flow cytometry data. J Biol Dyn (2013) 0.77
Strategic Priming with Multiple Antigens can Yield Memory Cell Phenotypes Optimized for Infection with Mycobacterium tuberculosis: A Computational Study. Front Microbiol (2016) 0.76
Effects of ozone exposure on human epithelial adenocarcinoma and normal fibroblasts cells. PLoS One (2017) 0.75
Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection. Proc Natl Acad Sci U S A (2008) 16.54
Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection. J Exp Med (2009) 7.01
The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection. J Exp Med (2009) 6.22
Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1. J Exp Med (2009) 4.79
A novel antiviral intervention results in more accurate assessment of human immunodeficiency virus type 1 replication dynamics and T-cell decay in vivo. J Virol (2003) 4.12
Kinetics of influenza A virus infection in humans. J Virol (2006) 3.78
High Multiplicity Infection by HIV-1 in Men Who Have Sex with Men. PLoS Pathog (2010) 3.68
Acute loss of intestinal CD4+ T cells is not predictive of simian immunodeficiency virus virulence. J Immunol (2007) 3.24
Transcriptional repressor Blimp-1 is essential for T cell homeostasis and self-tolerance. Nat Immunol (2006) 3.09
Transmission of single HIV-1 genomes and dynamics of early immune escape revealed by ultra-deep sequencing. PLoS One (2010) 3.02
Persistent HIV-1 replication is associated with lower antiretroviral drug concentrations in lymphatic tissues. Proc Natl Acad Sci U S A (2014) 2.95
BAFF selectively enhances the survival of plasmablasts generated from human memory B cells. J Clin Invest (2003) 2.87
Rapid emergence of protease inhibitor resistance in hepatitis C virus. Sci Transl Med (2010) 2.82
Modeling shows that the NS5A inhibitor daclatasvir has two modes of action and yields a shorter estimate of the hepatitis C virus half-life. Proc Natl Acad Sci U S A (2013) 2.79
Plasma cell ontogeny defined by quantitative changes in blimp-1 expression. J Exp Med (2004) 2.76
Modelling how ribavirin improves interferon response rates in hepatitis C virus infection. Nature (2004) 2.74
Initiation of plasma-cell differentiation is independent of the transcription factor Blimp-1. Immunity (2007) 2.61
Early appearance of germinal center-derived memory B cells and plasma cells in blood after primary immunization. J Exp Med (2005) 2.51
Viral dynamics and response differences in HCV-infected African American and white patients treated with IFN and ribavirin. Hepatology (2003) 2.50
The role of models in understanding CD8+ T-cell memory. Nat Rev Immunol (2005) 2.43
Modeling sequence evolution in acute HIV-1 infection. J Theor Biol (2009) 2.32
Immediate antiviral therapy appears to restrict resting CD4+ cell HIV-1 infection without accelerating the decay of latent infection. Proc Natl Acad Sci U S A (2012) 2.27
The complexity of complexes in signal transduction. Biotechnol Bioeng (2003) 2.20
Intrinsic differences in the proliferation of naive and memory human B cells as a mechanism for enhanced secondary immune responses. J Immunol (2003) 2.17
Evidence from the generation of immunoglobulin G-secreting cells that stochastic mechanisms regulate lymphocyte differentiation. Nat Immunol (2003) 2.11
Vertical T cell immunodominance and epitope entropy determine HIV-1 escape. J Clin Invest (2012) 2.05
Intensification of antiretroviral therapy accelerates the decay of the HIV-1 latent reservoir and decreases, but does not eliminate, ongoing virus replication. J Acquir Immune Defic Syndr (2004) 2.05
Measuring lymphocyte proliferation, survival and differentiation using CFSE time-series data. Nat Protoc (2007) 2.04
Different dynamics of CD4+ and CD8+ T cell responses during and after acute lymphocytic choriomeningitis virus infection. J Immunol (2003) 2.03
Estimation of the initial viral growth rate and basic reproductive number during acute HIV-1 infection. J Virol (2010) 2.02
Kinetics of hepatitis C virus reinfection after liver transplantation. Liver Transpl (2006) 2.01
Triphasic decline of hepatitis C virus RNA during antiviral therapy. Hepatology (2007) 2.00
CD8+ lymphocytes control viral replication in SIVmac239-infected rhesus macaques without decreasing the lifespan of productively infected cells. PLoS Pathog (2010) 1.99
Impaired humoral immunity in X-linked lymphoproliferative disease is associated with defective IL-10 production by CD4+ T cells. J Clin Invest (2005) 1.92
Determining the relative efficacy of highly active antiretroviral therapy. J Infect Dis (2003) 1.90
B cell receptor-independent stimuli trigger immunoglobulin (Ig) class switch recombination and production of IgG autoantibodies by anergic self-reactive B cells. J Exp Med (2003) 1.89
Modeling hepatitis C virus dynamics: liver regeneration and critical drug efficacy. J Theor Biol (2007) 1.89
Designing a genome-based HIV incidence assay with high sensitivity and specificity. AIDS (2011) 1.88
Second-phase hepatitis C virus RNA decline during telaprevir-based therapy increases with drug effectiveness: implications for treatment duration. Hepatology (2011) 1.87
Turnover rates of B cells, T cells, and NK cells in simian immunodeficiency virus-infected and uninfected rhesus macaques. J Immunol (2003) 1.87
Activation-induced B cell fates are selected by intracellular stochastic competition. Science (2012) 1.84
In vivo dynamics of T cell activation, proliferation, and death in HIV-1 infection: why are CD4+ but not CD8+ T cells depleted? Proc Natl Acad Sci U S A (2002) 1.82
Quantifying the early immune response and adaptive immune response kinetics in mice infected with influenza A virus. J Virol (2010) 1.80
Modeling latently infected cell activation: viral and latent reservoir persistence, and viral blips in HIV-infected patients on potent therapy. PLoS Comput Biol (2009) 1.78
Kinetics of virus-specific CD8+ T cells and the control of human immunodeficiency virus infection. J Virol (2004) 1.77
Simulation and prediction of the adaptive immune response to influenza A virus infection. J Virol (2009) 1.76
Early ribavirin pharmacokinetics, HCV RNA and alanine aminotransferase kinetics in HIV/HCV co-infected patients during treatment with pegylated interferon and ribavirin. J Hepatol (2007) 1.74
ON IDENTIFIABILITY OF NONLINEAR ODE MODELS AND APPLICATIONS IN VIRAL DYNAMICS. SIAM Rev Soc Ind Appl Math (2011) 1.69
Pharmacodynamics of PEG-IFN alpha differentiate HIV/HCV coinfected sustained virological responders from nonresponders. Hepatology (2006) 1.69
Polyspecificity of T cell and B cell receptor recognition. Semin Immunol (2007) 1.68
The genetic network controlling plasma cell differentiation. Semin Immunol (2011) 1.66
Effect of ribavirin on viral kinetics and liver gene expression in chronic hepatitis C. Gut (2013) 1.63
Early low-titer neutralizing antibodies impede HIV-1 replication and select for virus escape. PLoS Pathog (2012) 1.61
Impact of thymectomy on the peripheral T cell pool in rhesus macaques before and after infection with simian immunodeficiency virus. Eur J Immunol (2005) 1.60
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. J Virol (2011) 1.57
Parameter identifiability and estimation of HIV/AIDS dynamic models. Bull Math Biol (2008) 1.56
Drug resistance and influenza pandemics. Lancet (2002) 1.55
Transient viremia, plasma viral load, and reservoir replenishment in HIV-infected patients on antiretroviral therapy. J Acquir Immune Defic Syndr (2007) 1.54
A division-linked mechanism for the rapid generation of Ig-secreting cells from human memory B cells. J Immunol (2003) 1.53
Modeling long-term HIV dynamics and antiretroviral response: effects of drug potency, pharmacokinetics, adherence, and drug resistance. J Acquir Immune Defic Syndr (2005) 1.52
Increased expression of CD27 on activated human memory B cells correlates with their commitment to the plasma cell lineage. J Immunol (2005) 1.52
Division-linked differentiation can account for CD8+ T-cell phenotype in vivo. Eur J Immunol (2009) 1.51
Viral blip dynamics during highly active antiretroviral therapy. J Virol (2003) 1.51
Short-lived infected cells support virus replication in sooty mangabeys naturally infected with simian immunodeficiency virus: implications for AIDS pathogenesis. J Virol (2008) 1.51
Modeling amantadine treatment of influenza A virus in vitro. J Theor Biol (2008) 1.51
Simian immunodeficiency virus SIVagm dynamics in African green monkeys. J Virol (2008) 1.49
Modeling HIV persistence, the latent reservoir, and viral blips. J Theor Biol (2009) 1.49
Determination of virus burst size in vivo using a single-cycle SIV in rhesus macaques. Proc Natl Acad Sci U S A (2007) 1.48
Mathematical modeling of primary hepatitis C infection: noncytolytic clearance and early blockage of virion production. Gastroenterology (2005) 1.47
HIV-1 infection and low steady state viral loads. Bull Math Biol (2002) 1.46
Discontinuation of antiretroviral therapy commenced early during the course of human immunodeficiency virus type 1 infection, with or without adjunctive vaccination. J Infect Dis (2002) 1.45
Estimating time since infection in early homogeneous HIV-1 samples using a poisson model. BMC Bioinformatics (2010) 1.45
Agent-based modeling of host-pathogen systems: The successes and challenges. Inf Sci (Ny) (2009) 1.43
Multiplicity of human immunodeficiency virus infections in lymphoid tissue. J Virol (2004) 1.43
Complete genetic linkage can subvert natural selection. Proc Natl Acad Sci U S A (2007) 1.42
Mathematical analysis of delay differential equation models of HIV-1 infection. Math Biosci (2002) 1.41
Modeling and estimation of replication fitness of human immunodeficiency virus type 1 in vitro experiments by using a growth competition assay. J Virol (2006) 1.41
Dynamic correlation between intrahost HIV-1 quasispecies evolution and disease progression. PLoS Comput Biol (2008) 1.39
Complex patterns of viral load decay under antiretroviral therapy: influence of pharmacokinetics and intracellular delay. J Theor Biol (2004) 1.39
Isotype switching by human B cells is division-associated and regulated by cytokines. J Immunol (2002) 1.36
HIV dynamics with multiple infections of target cells. Proc Natl Acad Sci U S A (2005) 1.36
Acute hepatitis A virus infection is associated with a limited type I interferon response and persistence of intrahepatic viral RNA. Proc Natl Acad Sci U S A (2011) 1.36
Quantifying T lymphocyte turnover. J Theor Biol (2013) 1.35
Viral and latent reservoir persistence in HIV-1-infected patients on therapy. PLoS Comput Biol (2006) 1.35
Stochastic model of T cell proliferation: a calculus revealing IL-2 regulation of precursor frequencies, cell cycle time, and survival. J Immunol (2003) 1.35
Naïve and memory cell turnover as drivers of CCR5-to-CXCR4 tropism switch in human immunodeficiency virus type 1: implications for therapy. J Virol (2006) 1.31
Divide and conquer: the importance of cell division in regulating B-cell responses. Immunology (2004) 1.31
Quantifying the diversification of hepatitis C virus (HCV) during primary infection: estimates of the in vivo mutation rate. PLoS Pathog (2012) 1.30
Early hepatitis C viral kinetics correlate with long-term outcome in patients receiving high dose induction followed by combination interferon and ribavirin therapy. J Hepatol (2002) 1.30
Determining the antiviral activity of tenofovir disoproxil fumarate in treatment-naive chronically HIV-1-infected individuals. AIDS (2003) 1.30
Dynamic antibody specificities and virion concentrations in circulating immune complexes in acute to chronic HIV-1 infection. J Virol (2011) 1.28
Elucidation of hepatitis C virus transmission and early diversification by single genome sequencing. PLoS Pathog (2012) 1.28
Hepatitis C virus (HCV) and human immunodeficiency virus (HIV) dynamics during HCV treatment in HCV/HIV coinfection. J Infect Dis (2003) 1.27
Modeling within-host dynamics of influenza virus infection including immune responses. PLoS Comput Biol (2012) 1.26