(Q42050186)

English

Amino acid covariation in a functionally important human immunodeficiency virus type 1 protein region is associated with population subdivision

scientific article published on 11 March 2009

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

Amino acid covariation in a functionally important human immunodeficiency virus type 1 protein region is associated with population subdivision (English)

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

author name string

Jack da Silva

1

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

language of work or name

0 references

publication date

11 March 2009

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

number of pages

11

1 reference

based on heuristic

inferred from page(s)

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

182

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

1

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

265-275

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

Analysis of natural sequence variation and covariation in human immunodeficiency virus type 1 integrase

1 reference

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5 June 2018

Linkage disequilibrium--understanding the evolutionary past and mapping the medical future

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Analysis of correlated mutations in HIV-1 protease using spectral clustering

1 reference

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5 June 2018

An evolutionary-network model reveals stratified interactions in the V3 loop of the HIV-1 envelope.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Structures of the CCR5 N Terminus and of a Tyrosine-Sulfated Antibody with HIV-1 gp120 and CD4

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Distinguishing functional amino acid covariation from background linkage disequilibrium in HIV protease and reverse transcriptase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

HIV-1 subtype B protease and reverse transcriptase amino acid covariation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Structural basis for coreceptor selectivity by the HIV type 1 V3 loop

1 reference

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5 June 2018

Changes in the V3 region of gp120 contribute to unusually broad coreceptor usage of an HIV-1 isolate from a CCR5 Delta32 heterozygote.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

HIV evolutionary dynamics within and among hosts

1 reference

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5 June 2018

Molecular switch for alternative conformations of the HIV-1 V3 region: implications for phenotype conversion

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Site-specific amino acid frequency, fitness and the mutational landscape model of adaptation in human immunodeficiency virus type 1.

1 reference

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5 June 2018

Linkage disequilibrium due to random genetic drift in finite subdivided populations

1 reference

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5 June 2018

Human immunodeficiency virus type 1 coreceptor switching: V1/V2 gain-of-fitness mutations compensate for V3 loss-of-fitness mutations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Structure of a V3-containing HIV-1 gp120 core

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Kinetic factors control efficiencies of cell entry, efficacies of entry inhibitors, and mechanisms of adaptation of human immunodeficiency virus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Selection in context: patterns of natural selection in the glycoprotein 120 region of human immunodeficiency virus 1 within infected individuals

1 reference

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5 June 2018

Identifying epitopes of HIV-1 that induce protective antibodies

1 reference

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5 June 2018

MUSCLE: multiple sequence alignment with high accuracy and high throughput

1 reference

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5 June 2018

Dynamics of HIV-1 recombination in its natural target cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

The crown and stem of the V3 loop play distinct roles in human immunodeficiency virus type 1 envelope glycoprotein interactions with the CCR5 coreceptor

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Unusual distribution of mutations associated with serial bottleneck passages of human immunodeficiency virus type 1

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Linkage disequilibrium and recombination in hominid mitochondrial DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Analysis of the critical domain in the V3 loop of human immunodeficiency virus type 1 gp120 involved in CCR5 utilization

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Origin of HIV-1 in the chimpanzee Pan troglodytes troglodytes

1 reference

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5 June 2018

The HIV-1 Envelope Glycoproteins: Fusogens, Antigens, and Immunogens

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Selective employment of chemokine receptors as human immunodeficiency virus type 1 coreceptors determined by individual amino acids within the envelope V3 loop

1 reference

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Evolutionary mechanisms and population dynamics of the third variable envelope region of HIV within single hosts

1 reference

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In vivo compartmentalization of human immunodeficiency virus: evidence from the examination of pol sequences from autopsy tissues

1 reference

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5 June 2018

Covariability of V3 loop amino acids.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Selection for specific sequences in the external envelope protein of human immunodeficiency virus type 1 upon primary infection

1 reference

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5 June 2018

Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: an information theoretic analysis

1 reference

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5 June 2018

Linkage disequilibrium in growing and stable populations

1 reference

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5 June 2018

The effect of linkage on directional selection

1 reference

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5 June 2018

Linkage disequilibrium at steady state determined by random genetic drift and recurrent mutation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2674822

5 June 2018

Linkage disequilibrium in subdivided populations

1 reference

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Population genetics of marine pelecypods. 3. Epistasis between functionally related isoenzymes of Mytilus edulis

1 reference

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Stable linkage disequilibrium without epistasis in subdivided populations.

1 reference

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5 June 2018

The sampling distribution of linkage disequilibrium under an infinite allele model without selection.

1 reference

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Identification of the envelope V3 loop as the primary determinant of cell tropism in HIV-1.

1 reference

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Phenotype-associated sequence variation in the third variable domain of the human immunodeficiency virus type 1 gp120 molecule

1 reference

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Minimal requirements for the human immunodeficiency virus type 1 V3 domain to support the syncytium-inducing phenotype: analysis by single amino acid substitution

1 reference

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Gene flow and selection in a two-locus system

1 reference

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Covariation of amino acid positions in HIV-1 protease

1 reference

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Adaptation in the env gene of HIV-1 and evolutionary theories of disease progression

1 reference

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17 August 2018

Adaptive evolution of human immunodeficiency virus-type 1 during the natural course of infection

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HIV-1 tropism and co-receptor use

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1 reference

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Nonuniform recombination within the human beta-globin gene cluster

1 reference

https://pubmed.ncbi.nlm.nih.gov/19279325

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Linkage disequilibrium in finite populations

1 reference

https://pubmed.ncbi.nlm.nih.gov/19279325

12 December 2020

based on heuristic

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Covariability of selected amino acid positions for HIV type 1 subtypes C and B

1 reference

https://pubmed.ncbi.nlm.nih.gov/19279325

12 December 2020

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1 reference

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12 December 2020

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Identifiers

10.1534/GENETICS.108.099853

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

15 October 2017

ResearchGate publication ID

0 references

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