Translating HIV sequences into quantitative fitness landscapes predicts viral vulnerabilities for rational immunogen design (Q34334803)

1 August 2017

title

Translating HIV sequences into quantitative fitness landscapes predicts viral vulnerabilities for rational immunogen design (English)

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1 August 2017

4

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1 August 2017

Andrew L Ferguson

1

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Bruce D. Walker

series ordinal

5

object named as

Bruce D Walker

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1 August 2017

2

Jaclyn K Mann

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1 August 2017

3

Saleha Omarjee

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1 August 2017

Arup K Chakraborty

6

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1 August 2017

language of work or name

English

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publication date

1 March 2013

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1 August 2017

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1 August 2017

volume

38

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1 August 2017

issue

3

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1 August 2017

page(s)

606-617

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Memory CD8 T cells specific for a single immunodominant or subdominant determinant induced by peptide-dendritic cell immunization protect from an acute lethal viral disease

1 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Exploring the complexity of the HIV-1 fitness landscape

6 July 2018

1 reference

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Whole genome deep sequencing of HIV-1 reveals the impact of early minor variants upon immune recognition during acute infection

6 July 2018

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Impact of HLA-B*81-associated mutations in HIV-1 Gag on viral replication capacity

6 July 2018

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Broad neutralization coverage of HIV by multiple highly potent antibodies

6 July 2018

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Vaccine-induced HIV-specific CD8 T cells utilize preferential HLA alleles and target-specific regions of HIV-1.

6 July 2018

1 reference

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Coordinate linkage of HIV evolution reveals regions of immunological vulnerability

6 July 2018

1 reference

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Profound early control of highly pathogenic SIV by an effector memory T-cell vaccine

6 July 2018

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Progression to AIDS in South Africa is associated with both reverting and compensatory viral mutations

6 July 2018

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Relationship between functional profile of HIV-1 specific CD8 T cells and epitope variability with the selection of escape mutants in acute HIV-1 infection

6 July 2018

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Allele frequency net: a database and online repository for immune gene frequencies in worldwide populations

6 July 2018

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The major genetic determinants of HIV-1 control affect HLA class I peptide presentation

6 July 2018

1 reference

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Early selection in Gag by protective HLA alleles contributes to reduced HIV-1 replication capacity that may be largely compensated for in chronic infection

6 July 2018

1 reference

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Efficacious early antiviral activity of HIV Gag- and Pol-specific HLA-B 2705-restricted CD8 T cells

6 July 2018

1 reference

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Impaired replication capacity of acute/early viruses in persons who become HIV controllers

6 July 2018

1 reference

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HLA-associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins

6 July 2018

1 reference

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Human immunodeficiency virus type 1-specific CD8 T-cell responses during primary infection are major determinants of the viral set point and loss of CD4 T cells

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Variable fitness impact of HIV-1 escape mutations to cytotoxic T lymphocyte (CTL) response

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

HLA footprints on human immunodeficiency virus type 1 are associated with interclade polymorphisms and intraclade phylogenetic clustering

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Effector memory T cell responses are associated with protection of rhesus monkeys from mucosal simian immunodeficiency virus challenge

6 July 2018

1 reference

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HLA-B57/B*5801 human immunodeficiency virus type 1 elite controllers select for rare gag variants associated with reduced viral replication capacity and strong cytotoxic T-lymphocyte [corrected] recognition

6 July 2018

1 reference

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Dynamic correlation between intrahost HIV-1 quasispecies evolution and disease progression

6 July 2018

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HLA-associated alterations in replication capacity of chimeric NL4-3 viruses carrying gag-protease from elite controllers of human immunodeficiency virus type 1.

6 July 2018

1 reference

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Immunotherapy of established (pre)malignant disease by synthetic long peptide vaccines

6 July 2018

1 reference

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Structural and functional constraints limit options for cytotoxic T-lymphocyte escape in the immunodominant HLA-B27-restricted epitope in human immunodeficiency virus type 1 capsid

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

HIV-1 group M conserved elements vaccine

6 July 2018

1 reference

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Design and pre-clinical evaluation of a universal HIV-1 vaccine

6 July 2018

1 reference

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Escape from the dominant HLA-B27-restricted cytotoxic T-lymphocyte response in Gag is associated with a dramatic reduction in human immunodeficiency virus type 1 replication

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Escape and compensation from early HLA-B57-mediated cytotoxic T-lymphocyte pressure on human immunodeficiency virus type 1 Gag alter capsid interactions with cyclophilin A.

6 July 2018

1 reference

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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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Recognition of a defined region within p24 gag by CD8 T cells during primary human immunodeficiency virus type 1 infection in individuals expressing protective HLA class I alleles

6 July 2018

1 reference

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Fitness cost of escape mutations in p24 Gag in association with control of human immunodeficiency virus type 1

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Selective escape from CD8 T-cell responses represents a major driving force of human immunodeficiency virus type 1 (HIV-1) sequence diversity and reveals constraints on HIV-1 evolution

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

The application of statistical physics to evolutionary biology

6 July 2018

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HIV and SIV CTL escape: implications for vaccine design

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Immune selection for altered antigen processing leads to cytotoxic T lymphocyte escape in chronic HIV-1 infection

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

New class I and II HLA alleles strongly associated with opposite patterns of progression to AIDS.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Elite control of HIV infection: implications for vaccine design

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Reversion of CTL escape–variant immunodeficiency viruses in vivo

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

HIV evolution: CTL escape mutation and reversion after transmission

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

A systems analysis of mutational effects in HIV-1 protease and reverse transcriptase

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Greater viral rebound and reduced time to resume antiretroviral therapy after therapeutic immunization with the ALVAC-HIV vaccine (vCP1452)

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3728823

Rates of HIV immune escape and reversion: implications for vaccination

27 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23521886

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/J.IMMUNI.2012.11.022

1 reference

1 August 2017

1 reference

1 August 2017

1 reference