(Q34804767)

4 August 2017

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

1 reference

4 August 2017

Rebecca Batorsky

1

0 references

Mary Kearney

object named as

Mary F Kearney

series ordinal

2

0 references

Frank Maldarelli

series ordinal

4

object named as

Frank Maldarelli

1 reference

4 August 2017

6

John M Coffin

1 reference

4 August 2017

3

Sarah E Palmer

1 reference

4 August 2017

Igor M Rouzine

5

1 reference

PubMed ID

21436045

4 August 2017

language of work or name

English

0 references

publication date

21 March 2011

1 reference

Proceedings of the National Academy of Sciences of the United States of America

4 August 2017

1 reference

4 August 2017

108

1 reference

4 August 2017

14

1 reference

4 August 2017

5661-5666

1 reference

Multi-site adaptation in the presence of infrequent recombination

4 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Recombination rate and selection strength in HIV intra-patient evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Phylogenetic analysis of population-based and deep sequencing data to identify coevolving sites in the nef gene of HIV-1.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Rate of adaptation in large sexual populations

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Model with two types of CTL regulation and experiments on CTL dynamics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Human immunodeficiency virus type 1 population genetics and adaptation in newly infected individuals.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

The stochastic edge in adaptive evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Beneficial mutation selection balance and the effect of linkage on positive selection

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Highly fit ancestors of a partly sexual haploid population

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Rapid viral decay in simian immunodeficiency virus-infected macaques receiving quadruple antiretroviral therapy

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Two types of cytotoxic lymphocyte regulation explain kinetics of immune response to human immunodeficiency virus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Perspective: Sign epistasis and genetic constraint on evolutionary trajectories

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Evolution of human immunodeficiency virus under selection and weak recombination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Evidence for Positive Epistasis in HIV-1

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Pervasive genomic recombination of HIV-1 in vivo

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Dynamics of HIV-1 recombination in its natural target cells

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Negative effect of genetic bottlenecks on the adaptability of vesicular stomatitis virus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Recombination can evolve in large finite populations given selection on sufficient loci.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Patterns of epistasis in RNA viruses: a review of the evidence from vaccine design

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

A novel antiviral intervention results in more accurate assessment of human immunodeficiency virus type 1 replication dynamics and T-cell decay in vivo

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

The solitary wave of asexual evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Experimental tests of the adaptive significance of sexual recombination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

A coalescent-based method for detecting and estimating recombination from gene sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Genetic drift and within-host metapopulation dynamics of HIV-1 infection

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Transition between stochastic evolution and deterministic evolution in the presence of selection: general theory and application to virology.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Evolution of lamivudine resistance in human immunodeficiency virus type 1-infected individuals: the relative roles of drift and selection

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Linkage disequilibrium test implies a large effective population number for HIV in vivo

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Search for the mechanism of genetic variation in the pro gene of human immunodeficiency virus.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

The evolution of recombination: removing the limits to natural selection.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Analysis of HIV-1 env gene sequences reveals evidence for a low effective number in the viral population

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

Lower in vivo mutation rate of human immunodeficiency virus type 1 than that predicted from the fidelity of purified reverse transcriptase

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

The evolutionary advantage of recombination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3078368

A robust measure of HIV-1 population turnover within chronically infected individuals.

8 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

Some Genetic Aspects of Sex

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

The traveling-wave approach to asexual evolution: Muller's ratchet and speed of adaptation

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

Population dynamics of immune responses to persistent viruses.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

Small variations in multiple parameters account for wide variations in HIV-1 set-points: a novel modelling approach.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

Recombination: Multiply infected spleen cells in HIV patients

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

Molecular dissection of the potato virus Y VPg virulence factor reveals complex adaptations to the pvr2 resistance allelic series in pepper

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.1102036108

The effect of linkage on limits to artificial selection

21 January 2018

1 reference

12 December 2020

Increasing sequence correlation limits the efficiency of recombination in a multisite evolution model

1 reference

12 December 2020

Helper-dependent vs. helper-independent CTL responses in HIV infection: implications for drug therapy and resistance

1 reference

12 December 2020

1 reference

12 December 2020

RNA virus evolution via a fitness-space model

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.1102036108

1 reference

4 August 2017

0 references

1 reference

4 August 2017

1 reference

PubMed ID

21436045