(Q40188864)

English

In silico and cell-based analyses reveal strong divergence between prediction and observation of T-cell-recognized tumor antigen T-cell epitopes

scientific article published on 23 May 2017

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

In silico and cell-based analyses reveal strong divergence between prediction and observation of T-cell-recognized tumor antigen T-cell epitopes (English)

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

1 reference

based on heuristic

inferred from title

5

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

author name string

Julien Schmidt

1

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

Philippe Guillaume

2

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

Danijel Dojcinovic

3

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

Julia Karbach

4

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

Immanuel Luescher

6

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

language of work or name

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publication date

23 May 2017

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

number of pages

10

1 reference

based on heuristic

inferred from page(s)

Journal of Biological Chemistry

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

292

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

28

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

11840-11849

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry

1 reference

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27 July 2018

Neoantigens encoded in the cancer genome

1 reference

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27 July 2018

Pan-Specific Prediction of Peptide-MHC Class I Complex Stability, a Correlate of T Cell Immunogenicity

1 reference

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27 July 2018

Mass spectrometry-based antigen discovery for cancer immunotherapy.

1 reference

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27 July 2018

Analyzing the effect of peptide-HLA-binding ability on the immunogenicity of potential CD8+ and CD4+ T cell epitopes in a large dataset

1 reference

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27 July 2018

NetMHCpan-3.0; improved prediction of binding to MHC class I molecules integrating information from multiple receptor and peptide length datasets

1 reference

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27 July 2018

AIRE expands: new roles in immune tolerance and beyond.

1 reference

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27 July 2018

Immunoinformatics and epitope prediction in the age of genomic medicine

1 reference

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T-cell memory responses elicited by yellow fever vaccine are targeted to overlapping epitopes containing multiple HLA-I and -II binding motifs

1 reference

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27 July 2018

An efficient T-cell epitope discovery strategy using in silico prediction and the iTopia assay platform

1 reference

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27 July 2018

HLA-A*0201-restricted CD8+ T-cell epitopes identified in dengue viruses

1 reference

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27 July 2018

Peptide-MHC class I stability is a better predictor than peptide affinity of CTL immunogenicity

1 reference

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27 July 2018

Seq2Logo: a method for construction and visualization of amino acid binding motifs and sequence profiles including sequence weighting, pseudo counts and two-sided representation of amino acid enrichment and depletion

1 reference

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27 July 2018

Immune epitope database analysis resource

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Efficacy of vaccination with recombinant vaccinia and fowlpox vectors expressing NY-ESO-1 antigen in ovarian cancer and melanoma patients

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Human leukocyte antigen (HLA) class I restricted epitope discovery in yellow fewer and dengue viruses: importance of HLA binding strength

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Loss of T Cell Antigen Recognition Arising from Changes in Peptide and Major Histocompatibility Complex Protein Flexibility: IMPLICATIONS FOR VACCINE DESIGN

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Real time detection of peptide-MHC dissociation reveals that improvement of primary MHC-binding residues can have a minimal, or no, effect on stability.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Prediction of epitopes using neural network based methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Vaccination with a recombinant protein encoding the tumor-specific antigen NY-ESO-1 elicits an A2/157-165-specific CTL repertoire structurally distinct and of reduced tumor reactivity than that elicited by spontaneous immune responses to NY-ESO-1-ex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

NetMHC-3.0: accurate web accessible predictions of human, mouse and monkey MHC class I affinities for peptides of length 8-11

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Tumor-reactive CD8+ T-cell clones in patients after NY-ESO-1 peptide vaccination

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Structural and kinetic basis for heightened immunogenicity of T cell vaccines

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Multiepitope CD8(+) T cell response to a NY-ESO-1 peptide vaccine results in imprecise tumor targeting

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Simultaneous humoral and cellular immune response against cancer-testis antigen NY-ESO-1: definition of human histocompatibility leukocyte antigen (HLA)-A2-binding peptide epitopes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

Prominent role of secondary anchor residues in peptide binding to HLA-A2.1 molecules

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

The antigenic identity of peptide-MHC complexes: a comparison of the conformations of five viral peptides presented by HLA-A2

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

27 July 2018

The Length Distribution of Class I-Restricted T Cell Epitopes Is Determined by Both Peptide Supply and MHC Allele-Specific Binding Preference

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Gapped sequence alignment using artificial neural networks: application to the MHC class I system.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

New York esophageal squamous cell carcinoma-1 and cancer immunotherapy

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Neoantigens in cancer immunotherapy.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

TCR contact residue hydrophobicity is a hallmark of immunogenic CD8+ T cell epitopes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Automated benchmarking of peptide-MHC class I binding predictions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Discovering protective CD8 T cell epitopes--no single immunologic property predicts it!

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Immunogenic peptide discovery in cancer genomes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Role of peptide processing predictions in T cell epitope identification: contribution of different prediction programs.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Structural basis for ineffective T-cell responses to MHC anchor residue-improved "heteroclitic" peptides

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

High sensitivity of cancer exome-based CD8 T cell neo-antigen identification

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

NY-ESO-1 specific antibody and cellular responses in melanoma patients primed with NY-ESO-1 protein in ISCOMATRIX and boosted with recombinant NY-ESO-1 fowlpox virus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

HLA-binding properties of tumor neoepitopes in humans

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

NetTepi: an integrated method for the prediction of T cell epitopes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Enhancement of an anti-tumor immune response by transient blockade of central T cell tolerance

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Improved pan-specific MHC class I peptide-binding predictions using a novel representation of the MHC-binding cleft environment

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Properties of MHC class I presented peptides that enhance immunogenicity

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Identification of conserved and HLA promiscuous DENV3 T-cell epitopes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

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NetMHCstab - predicting stability of peptide-MHC-I complexes; impacts for cytotoxic T lymphocyte epitope discovery.

1 reference

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Peptide modulation of class I major histocompatibility complex protein molecular flexibility and the implications for immune recognition.

1 reference

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20 August 2018

HLA-A*01:03, HLA-A*24:02, HLA-B*08:01, HLA-B*27:05, HLA-B*35:01, HLA-B*44:02, and HLA-C*07:01 monochain transgenic/H-2 class I null mice: novel versatile preclinical models of human T cell responses.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Prediction of HLA class I-restricted T-cell epitopes of islet autoantigen combined with binding and dissociation assays.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

The immune epitope database 2.0.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Peptide binding to HLA class I molecules: homogenous, high-throughput screening, and affinity assays.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

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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=5512077

20 August 2018

Recombinant vaccinia/fowlpox NY-ESO-1 vaccines induce both humoral and cellular NY-ESO-1-specific immune responses in cancer patients.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Relating TCR-peptide-MHC affinity to immunogenicity for the design of tumor vaccines

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Striking immunodominance hierarchy of naturally occurring CD8+ and CD4+ T cell responses to tumor antigen NY-ESO-1.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Soluble major histocompatibility complex-peptide octamers with impaired CD8 binding selectively induce Fas-dependent apoptosis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

CD8(+) T cell responses against a dominant cryptic HLA-A2 epitope after NY-ESO-1 peptide immunization of cancer patients

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Exogenous peptides presented by transporter associated with antigen processing (TAP)-deficient and TAP-competent cells: intracellular loading and kinetics of presentation

1 reference

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20 August 2018

CD4(+) T cell recognition of MHC class II-restricted epitopes from NY-ESO-1 presented by a prevalent HLA DP4 allele: association with NY-ESO-1 antibody production

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Naturally occurring human lymphocyte antigen-A2 restricted CD8+ T-cell response to the cancer testis antigen NY-ESO-1 in melanoma patients.

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

A simple method for displaying the hydropathic character of a protein

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5512077

20 August 2018

Correlation of sequence hydrophobicities measures similarity in three-dimensional protein structure

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20 August 2018

Prediction of protein antigenic determinants from amino acid sequences

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20 August 2018

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20 August 2018

Extensive major histocompatibility complex class I binding promiscuity for Mycobacterium tuberculosis TB10.4 peptides and immune dominance of human leucocyte antigen (HLA)-B*0702 and HLA-B*0801 alleles in TB10.4 CD8 T-cell responses

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https://api.crossref.org/works/10.1074%2FJBC.M117.789511

21 January 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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21 January 2018

Development of hydrophobicity parameters to analyze proteins which bear post- or cotranslational modifications

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Epitope clustering in regions undergoing efficient proteasomal processing defines immunodominant CTL regions of a tumor antigen

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Extension of the fragment method to calculate amino acid zwitterion and side chain partition coefficients

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A mouse model of human adaptive immune functions: HLA-A2.1-/HLA-DR1-transgenic H-2 class I-/class II-knockout mice

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

HLA class I - associated immunodominance affects CTL responsiveness to an ESO recombinant protein tumor antigen vaccine

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Hydrophobicity of the peptide CO···HN hydrogen-bonded group

1 reference

https://pubmed.ncbi.nlm.nih.gov/28536262

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1074/JBC.M117.789511

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

20 July 2018

http://europepmc.org/abstract/PMC/5512077

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