Mathematical modeling of ultradeep sequencing data reveals that acute CD8+ T-lymphocyte responses exert strong selective pressure in simian immunodeficiency virus-infected macaques but still fail to clear founder epitope sequences (Q33545560)

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English	Mathematical modeling of ultradeep sequencing data reveals that acute CD8+ T-lymphocyte responses exert strong selective pressure in simian immunodeficiency virus-infected macaques but still fail to clear founder epitope sequences	scientific article

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29 January 2020

Mathematical modeling of ultradeep sequencing data reveals that acute CD8+ T-lymphocyte responses exert strong selective pressure in simian immunodeficiency virus-infected macaques but still fail to clear founder epitope sequences (English)

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29 January 2020

Simian immunodeficiency virus

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1

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29 January 2020

Stephen Dewhurst

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29 January 2020

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Sally W Thurston

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29 January 2020

Michael C Keefer

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29 January 2020

Ha Youn Lee

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29 January 2020

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24 March 2010

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29 January 2020

Journal of Virology

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29 January 2020

84

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29 January 2020

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29 January 2020

5802-5814

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29 January 2020

Dynamics of haplotype frequency change in a CD8+TL epitope of simian immunodeficiency virus

1 reference

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21 June 2018

Modeling sequence evolution in acute HIV-1 infection

1 reference

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1 reference

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21 June 2018

Ultradeep pyrosequencing detects complex patterns of CD8+ T-lymphocyte escape in simian immunodeficiency virus-infected macaques

1 reference

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Nef gene evolution from a single transmitted strain in acute SIV infection

1 reference

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21 June 2018

Genetic identity, biological phenotype, and evolutionary pathways of transmitted/founder viruses in acute and early HIV-1 infection

1 reference

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21 June 2018

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

1 reference

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21 June 2018

Low-dose rectal inoculation of rhesus macaques by SIVsmE660 or SIVmac251 recapitulates human mucosal infection by HIV-1.

1 reference

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Complexity of the inoculum determines the rate of reversion of SIV Gag CD8 T cell mutant virus and outcome of infection

1 reference

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21 June 2018

Mauritian cynomolgus macaques share two exceptionally common major histocompatibility complex class I alleles that restrict simian immunodeficiency virus-specific CD8+ T cells

1 reference

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Quantitating the multiplicity of infection with human immunodeficiency virus type 1 subtype C reveals a non-poisson distribution of transmitted variants

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Protective HLA class I alleles that restrict acute-phase CD8+ T-cell responses are associated with viral escape mutations located in highly conserved regions of human immunodeficiency virus type 1.

1 reference

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21 June 2018

The Genome Sequencer FLX System--longer reads, more applications, straight forward bioinformatics and more complete data sets

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21 June 2018

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

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21 June 2018

HLA class I-restricted T-cell responses may contribute to the control of human immunodeficiency virus infection, but such responses are not always necessary for long-term virus control

1 reference

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Genetic and immunologic heterogeneity among persons who control HIV infection in the absence of therapy.

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Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing

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Vaccination and timing influence SIV immune escape viral dynamics in vivo

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21 June 2018

Evolution of human immunodeficiency virus type 1 cytotoxic T-lymphocyte epitopes: fitness-balanced escape

1 reference

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21 June 2018

Estimating the effectiveness of simian immunodeficiency virus-specific CD8+ T cells from the dynamics of viral immune escape

1 reference

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21 June 2018

Compensatory mutation partially restores fitness and delays reversion of escape mutation within the immunodominant HLA-B*5703-restricted Gag epitope in chronic human immunodeficiency virus type 1 infection

1 reference

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21 June 2018

In vivo CD8+ T cell control of immunodeficiency virus infection in humans and macaques

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21 June 2018

Fully differentiated HIV-1 specific CD8+ T effector cells are more frequently detectable in controlled than in progressive HIV-1 infection

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Estimating Costs and Benefits of CTL Escape Mutations in SIV/HIV Infection

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Inefficient cytotoxic T lymphocyte-mediated killing of HIV-1-infected cells in vivo

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Rapid viral escape at an immunodominant simian-human immunodeficiency virus cytotoxic T-lymphocyte epitope exacts a dramatic fitness cost

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Multiple, linked human immunodeficiency virus type 1 drug resistance mutations in treatment-experienced patients are missed by standard genotype analysis

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Extraepitopic compensatory substitutions partially restore fitness to simian immunodeficiency virus variants that escape from an immunodominant cytotoxic-T-lymphocyte response

1 reference

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Consistent cytotoxic-T-lymphocyte targeting of immunodominant regions in human immunodeficiency virus across multiple ethnicities

1 reference

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Multispecific vaccine-induced mucosal cytotoxic T lymphocytes reduce acute-phase viral replication but fail in long-term control of simian immunodeficiency virus SIVmac239.

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Viral persistence alters CD8 T-cell immunodominance and tissue distribution and results in distinct stages of functional impairment

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1 reference

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Dramatic rise in plasma viremia after CD8(+) T cell depletion in simian immunodeficiency virus-infected macaques.

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Control of viremia in simian immunodeficiency virus infection by CD8+ lymphocytes

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A sequencing method based on real-time pyrophosphate

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Positive selection of HIV-1 cytotoxic T lymphocyte escape variants during primary infection

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1 reference

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Acute phase cytotoxic T lymphocyte escape is a hallmark of simian immunodeficiency virus infection

1 reference

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Sexual Transmission and Propagation of SIV and HIV in Resting and Activated CD4+ T Cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/20335256

12 December 2020

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Single nucleotide polymorphism (SNP) allele frequency estimation in DNA pools using Pyrosequencing™

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https://pubmed.ncbi.nlm.nih.gov/20335256

12 December 2020

based on heuristic

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10.1128/JVI.00117-10

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Europe PubMed Central

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29 January 2020

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29 January 2020

PubMed publication ID

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Europe PubMed Central

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29 January 2020

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