(Q34487794)

English

Mapping the landscape of host-pathogen coevolution: HLA class I binding and its relationship with evolutionary conservation in human and viral proteins.

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scholarly article

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Europe PubMed Central

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16 January 2020

Mapping the landscape of host-pathogen coevolution: HLA class I binding and its relationship with evolutionary conservation in human and viral proteins (English)

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16 January 2020

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16 January 2020

Elizabeth J. Phillips

6

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Elizabeth Phillips

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16 January 2020

Silvana Gaudieri

5

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Silvana Gaudieri

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16 January 2020

Simon A. Mallal

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Simon Mallal

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16 January 2020

author name string

David Nolan

2

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16 January 2020

Ian James

3

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16 January 2020

Mina John

4

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16 January 2020

Jim C Huang

7

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16 January 2020

Gonzalo Riadi

8

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16 January 2020

Nebojsa Jojic

10

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16 January 2020

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17 November 2010

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16 January 2020

Journal of Virology

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16 January 2020

85

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16 January 2020

1310-1321

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16 January 2020

3

1 reference

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16 January 2020

Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b.

1 reference

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6 July 2018

Distinctive pattern of sequence polymorphism in the NS3 protein of hepatitis C virus type 1b reflects conflicting evolutionary pressures

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

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Dengue Virus Replicon Expressing the Nonstructural Proteins Suffices To Enhance Membrane Expression of HLA Class I and Inhibit Lysis by Human NK Cells

1 reference

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6 July 2018

HLA class I-driven evolution of human immunodeficiency virus type 1 subtype c proteome: immune escape and viral load

1 reference

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6 July 2018

Evaluation of MHC class I peptide binding prediction servers: applications for vaccine research

1 reference

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6 July 2018

Amino Acid Similarity Accounts for T Cell Cross-Reactivity and for “Holes” in the T Cell Repertoire

1 reference

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Pathogen evasion strategies for the major histocompatibility complex class I assembly pathway.

1 reference

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6 July 2018

HLA class I supertypes: a revised and updated classification

1 reference

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6 July 2018

Efficient peptide-MHC-I binding prediction for alleles with few known binders.

1 reference

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6 July 2018

High Pro-Inflammatory Cytokine Secretion and Loss of High Avidity Cross-Reactive Cytotoxic T-Cells during the Course of Secondary Dengue Virus Infection

1 reference

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6 July 2018

More effective purifying selection on RNA viruses than in DNA viruses

1 reference

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6 July 2018

HLA alleles associated with slow progression to AIDS truly prefer to present HIV-1 p24.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence

1 reference

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6 July 2018

Leveraging hierarchical population structure in discrete association studies

1 reference

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Phase-dependent immune evasion of herpesviruses

1 reference

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Gag-specific CD8+ T lymphocytes recognize infected cells before AIDS-virus integration and viral protein expression

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Evolutionary anatomies of positions and types of disease-associated and neutral amino acid mutations in the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Confronting complexity: real-world immunodominance in antiviral CD8+ T cell responses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Potential of ancestral sylvatic dengue-2 viruses to re-emerge

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

SVMHC: a server for prediction of MHC-binding peptides

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Dengue and dengue haemorrhagic fever: implications of host genetics

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

A community resource benchmarking predictions of peptide binding to MHC-I molecules

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Topics in herpesvirus genomics and evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Isolation and characterization of a protochordate histocompatibility locus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

The effects of thymic selection on the range of T cell cross-reactivity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Biological Transmission of Arboviruses: Reexamination of and New Insights into Components, Mechanisms, and Unique Traits as Well as Their Evolutionary Trends

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Generating quantitative models describing the sequence specificity of biological processes with the stabilized matrix method

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

The design and implementation of the immune epitope database and analysis resource

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Evolutionary and functional perspectives of the major histocompatibility complex class I antigen-processing machinery

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Comparative immunopeptidomics of humans and their pathogens

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

MHC polymorphism under host-pathogen coevolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Widespread purifying selection at polymorphic sites in human protein-coding loci

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Genetic content and evolution of adenoviruses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

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Functional map of human cytomegalovirus AD169 defined by global mutational analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Predicting proteasomal cleavage sites: a comparison of available methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Evolutionary change of predicted cytotoxic T cell epitopes of dengue virus

1 reference

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6 July 2018

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1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

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The influence of HLA genotype on AIDS

1 reference

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Viral immune evasion: a masterpiece of evolution

1 reference

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6 July 2018

Viral escape mechanisms--escapology taught by viruses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Dynamic tuning of T cell reactivity by self-peptide-major histocompatibility complex ligands

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Clustered mutations in HIV-1 gag are consistently required for escape from HLA-B27-restricted cytotoxic T lymphocyte responses.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Conservation of cytotoxic T lymphocyte (CTL) epitopes as a host strategy to constrain parasite adaptation: evidence from the nef gene of human immunodeficiency virus 1 (HIV-1).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Toward an understanding of the correlates of protective immunity to HIV infection

1 reference

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6 July 2018

Contrasting roles of interallelic recombination at the HLA-A and HLA-B loci

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

A uniquely high level of recombination at the HLA-B locus.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

Allelic genealogy under overdominant and frequency-dependent selection and polymorphism of major histocompatibility complex loci

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

6 July 2018

A hybrid approach for predicting promiscuous MHC class I restricted T cell epitopes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

27 October 2018

Phylogenetic Evidence for Deleterious Mutation Load in RNA Viruses and Its Contribution to Viral Evolution

1 reference

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27 October 2018

Evolution of cytotoxic T-lymphocyte epitopes in hepatitis B virus

1 reference

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27 October 2018

Learning MHC I--peptide binding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

27 October 2018

T-cell epitope repertoire as predicted from human and viral genomes.

1 reference

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27 October 2018

Dominant influence of HLA-B in mediating the potential co-evolution of HIV and HLA.

1 reference

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27 October 2018

ConSeq: the identification of functionally and structurally important residues in protein sequences.

1 reference

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27 October 2018

Memory inflation: continuous accumulation of antiviral CD8+ T cells over time.

1 reference

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27 October 2018

How the T Cell Repertoire Becomes Peptide and MHC Specific

1 reference

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27 October 2018

Pathogen-Driven Selection and Worldwide HLA Class I Diversity

1 reference

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27 October 2018

The role of the proteasome in generating cytotoxic T-cell epitopes: insights obtained from improved predictions of proteasomal cleavage

1 reference

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27 October 2018

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

1 reference

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9 December 2018

CD8+ T-cell responses to different HIV proteins have discordant associations with viral load

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3020499

9 December 2018

Class I and class II MHC bind self peptide sets that are strikingly different in their evolutionary characteristics

1 reference

https://pubmed.ncbi.nlm.nih.gov/21084470

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/21084470

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Self peptides bound by HLA class I molecules are derived from highly conserved regions of a set of evolutionarily conserved proteins

1 reference

https://pubmed.ncbi.nlm.nih.gov/21084470

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1128/JVI.01966-10

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21084470%20AND%20SRC:MED&resulttype=core&format=json

16 January 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21084470%20AND%20SRC:MED&resulttype=core&format=json

16 January 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:21084470%20AND%20SRC:MED&resulttype=core&format=json

16 January 2020

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