(Q33307183)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

title

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

1 reference

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27 December 2019

1

1 reference

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27 December 2019

Simon Frost

series ordinal

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

Sergei L. Kosakovsky Pond

27 December 2019

series ordinal

3

object named as

Sergei L Kosakovsky Pond

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

author name string

Fraser I Lewis

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

publication date

11 October 2007

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

PLOS Computational Biology

27 December 2019

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

volume

3

1 reference

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27 December 2019

issue

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

page(s)

e231

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

27 December 2019

copyright license

start time

23 November 2007

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Evolutionary interactions between N-linked glycosylation sites in the HIV-1 envelope

21 June 2018

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21 June 2018

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A Phylogenetic Method for Detecting Positive Epistasis in Gene Sequences and Its Application to RNA Virus Evolution

21 June 2018

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A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses.

21 June 2018

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

21 June 2018

1 reference

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Structure of a V3-containing HIV-1 gp120 core

21 June 2018

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Antibody vs. HIV in a clash of evolutionary titans

21 June 2018

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The coupon collector and the suppressor mutation: estimating the number of compensatory mutations by maximum likelihood.

21 June 2018

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Not so different after all: a comparison of methods for detecting amino acid sites under selection

21 June 2018

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HyPhy: hypothesis testing using phylogenies

21 June 2018

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21 June 2018

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Genetic and phenotypic analyses of human immunodeficiency virus type 1 escape from a small-molecule CCR5 inhibitor

21 June 2018

1 reference

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Stochastic Mapping of Morphological Characters

21 June 2018

1 reference

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Human immunodeficiency virus reverse transcriptase and protease sequence database

21 June 2018

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Immune-mediated positive selection drives human immunodeficiency virus type 1 molecular variation and predicts disease duration.

21 June 2018

1 reference

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Drug resistance in HIV-1 protease: Flexibility-assisted mechanism of compensatory mutations

21 June 2018

1 reference

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Human monoclonal antibodies specific for conformation-sensitive epitopes of V3 neutralize human immunodeficiency virus type 1 primary isolates from various clades.

21 June 2018

1 reference

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Diversity considerations in HIV-1 vaccine selection

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Variability in the human immunodeficiency virus type 1 gp120 Env protein linked to phenotype-associated changes in the V3 loop

21 June 2018

1 reference

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Heterotachy, an important process of protein evolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Improved success of phenotype prediction of the human immunodeficiency virus type 1 from envelope variable loop 3 sequence using neural networks

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Cellular immune response to human immunodeficiency virus

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Mapping the determinants of the CCR5 amino-terminal sulfopeptide interaction with soluble human immunodeficiency virus type 1 gp120-CD4 complexes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Cooperation of the V1/V2 and V3 domains of human immunodeficiency virus type 1 gp120 for interaction with the CXCR4 receptor.

21 June 2018

1 reference

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A fast algorithm for joint reconstruction of ancestral amino acid sequences

21 June 2018

1 reference

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Codon-substitution models for heterogeneous selection pressure at amino acid sites

21 June 2018

1 reference

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Genotypic and phenotypic characterization of human immunodeficiency virus type 1 variants isolated from patients treated with the protease inhibitor nelfinavir.

21 June 2018

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Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo Method

21 June 2018

1 reference

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Change in coreceptor use correlates with disease progression in HIV-1--infected individuals

21 June 2018

1 reference

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Mapping of independent V3 envelope determinants of human immunodeficiency virus type 1 macrophage tropism and syncytium formation in lymphocytes.

21 June 2018

1 reference

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Genetic correlates of in vivo viral resistance to indinavir, a human immunodeficiency virus type 1 protease inhibitor

21 June 2018

1 reference

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Mutational anatomy of an HIV-1 protease variant conferring cross-resistance to protease inhibitors in clinical trials. Compensatory modulations of binding and activity

21 June 2018

1 reference

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Covariability of V3 loop amino acids.

21 June 2018

1 reference

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Ordered accumulation of mutations in HIV protease confers resistance to ritonavir

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

A new method of inference of ancestral nucleotide and amino acid sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Human immunodeficiency virus type 1 tropism for T-lymphoid cell lines: role of the V3 loop and C4 envelope determinants

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Evidence for the cooperation of gp120 amino acids 322 and 448 in SIVmac entry

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Can three-dimensional contacts in protein structures be predicted by analysis of correlated mutations?

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Two-site binding of C5a by its receptor: an alternative binding paradigm for G protein-coupled receptors

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

The impact of the syncytium-inducing phenotype of human immunodeficiency virus on disease progression

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Immunochemical analysis of the gp120 surface glycoprotein of human immunodeficiency virus type 1: probing the structure of the C4 and V4 domains and the interaction of the C4 domain with the V3 loop

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

The complete Consensus V3 loop peptide of the envelope protein gp120 of HIV-1 shows pronounced helical character in solution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Identification of V3 mutations that can compensate for inactivating mutations in C4 of simian immunodeficiency virus

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

A new method for calculating evolutionary substitution rates

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

The neighbor-joining method: a new method for reconstructing phylogenetic trees

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Principal neutralizing domain of the human immunodeficiency virus type 1 envelope protein

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Functional interaction of constant and variable domains of human immunodeficiency virus type 1 gp120.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Human immunodeficiency virus type 1 neutralization epitope with conserved architecture elicits early type-specific antibodies in experimentally infected chimpanzees

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Type-specific neutralization of the human immunodeficiency virus with antibodies to env-encoded synthetic peptides

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

The three-dimensional structure of the aspartyl protease from the HIV-1 isolate BRU

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Convergent and divergent sequence evolution in the surface envelope glycoprotein of human immunodeficiency virus type 1 within a single infected patient

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Macrophage tropism determinants of human immunodeficiency virus type 1 in vivo

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Small amino acid changes in the V3 hypervariable region of gp120 can affect the T-cell-line and macrophage tropism of human immunodeficiency virus type 1

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Macrophage-tropic human immunodeficiency virus isolates from different patients exhibit unusual V3 envelope sequence homogeneity in comparison with T-cell-tropic isolates: definition of critical amino acids involved in cell tropism

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Induction of broadly cross-reactive cytotoxic T cells recognizing an HIV-1 envelope determinant

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Covariation of amino acid positions in HIV-1 protease

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

A new perspective on V3 phenotype prediction.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Bayesian phylogenetic inference via Markov chain Monte Carlo methods.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Maximum likelihood estimation on large phylogenies and analysis of adaptive evolution in human influenza virus A.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Effectiveness of correlation analysis in identifying protein residues undergoing correlated evolution.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2082504

Increased fitness of drug resistant HIV-1 protease as a result of acquisition of compensatory mutations during suboptimal therapy

31 October 2018

1 reference

12 December 2020

Natural analogue peptides of an HIV-1 GP120 T-helper epitope antagonize response of GP120-specific human CD4 T-cell clones

1 reference

12 December 2020

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

1 reference

12 December 2020

Evidence of HIV-1 adaptation to HLA-restricted immune responses at a population level

1 reference

12 December 2020

Mapping mutations on phylogenies

1 reference

12 December 2020

Consensus and Ancestral State HIV Vaccines

1 reference

12 December 2020

Local and global structural properties of the HIV-MN V3 loop

1 reference

12 December 2020

10.1371/JOURNAL.PCBI.0030231

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

journals/ploscb/PoonLPF07a

27 December 2019

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18039027%20AND%20SRC:MED&resulttype=core&format=json

27 December 2019

1 reference