标题
Predicting Antigen Presentation—What Could We Learn From a Million Peptides?
作者
关键词
-
出版物
Frontiers in Immunology
Volume 9, Issue -, Pages -
出版商
Frontiers Media SA
发表日期
2018-07-25
DOI
10.3389/fimmu.2018.01716
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes
- (2018) Marvin H. Gee et al. CELL
- Predicted MHC peptide binding promiscuity explains MHC class I ‘hotspots’ of antigen presentation defined by mass spectrometry eluted ligand data
- (2018) Emma Christine Jappe et al. IMMUNOLOGY
- Improved methods for predicting peptide binding affinity to MHC class II molecules
- (2018) Kamilla Kjaergaard Jensen et al. IMMUNOLOGY
- Improved Ribo-seq enables identification of cryptic translation events
- (2018) Florian Erhard et al. NATURE METHODS
- The C-terminal extension landscape of naturally presented HLA-I ligands
- (2018) Philippe Guillaume et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Peptide Repertoire of HLA-B27 may include Ligands with Lysine at P2 Anchor Position
- (2018) Shira Yair-Sabag et al. PROTEOMICS
- Membranal and Blood-Soluble HLA Class II Peptidome Analyses Using Data-Dependent and Independent Acquisition
- (2018) Danilo Ritz et al. PROTEOMICS
- Comparison of the MHC I Immunopeptidome Repertoire of B-Cell Lymphoblasts Using Two Isolation Methods
- (2018) Joël Lanoix et al. PROTEOMICS
- Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE)
- (2018) Jennie R. Lill et al. PROTEOMICS
- Computational Tools for the Identification and Interpretation of Sequence Motifs in Immunopeptidomes
- (2018) Bruno Alvarez et al. PROTEOMICS
- Sensitive and frequent identification of high avidity neo-epitope specific CD8+ T cells in immunotherapy-naive ovarian cancer
- (2018) Sara Bobisse et al. Nature Communications
- Deciphering the MHC-associated peptidome: a review of naturally processed ligand data
- (2017) Kerrie Vaughan et al. Expert Review of Proteomics
- Mass Spectrometry Profiling of HLA-Associated Peptidomes in Mono-allelic Cells Enables More Accurate Epitope Prediction
- (2017) Jennifer G. Abelin et al. IMMUNITY
- Machine learning reveals a non-canonical mode of peptide binding to MHC class II molecules
- (2017) Massimo Andreatta et al. IMMUNOLOGY
- The molecular basis for peptide repertoire selection in the human leukocyte antigen (HLA) C*06:02 molecule
- (2017) Jesse I. Mobbs et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Unconventional Peptide Presentation by Major Histocompatibility Complex (MHC) Class I Allele HLA-A*02:01
- (2017) Soumya G. Remesh et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Unveiling the Peptide Motifs of HLA-C and HLA-G from Naturally Presented Peptides and Generation of Binding Prediction Matrices
- (2017) Moreno Di Marco et al. JOURNAL OF IMMUNOLOGY
- NetMHCpan-4.0: Improved Peptide–MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data
- (2017) Vanessa Jurtz et al. JOURNAL OF IMMUNOLOGY
- Improved Prediction of Bovine Leucocyte Antigens (BoLA) Presented Ligands by Use of Mass-Spectrometry-Determined Ligand and in Vitro Binding Data
- (2017) Morten Nielsen et al. JOURNAL OF PROTEOME RESEARCH
- High-throughput and Sensitive Immunopeptidomics Platform Reveals Profound Interferonγ-Mediated Remodeling of the Human Leukocyte Antigen (HLA) Ligandome
- (2017) Chloe Chong et al. MOLECULAR & CELLULAR PROTEOMICS
- Personalized RNA mutanome vaccines mobilize poly-specific therapeutic immunity against cancer
- (2017) Ugur Sahin et al. NATURE
- Antigen presentation profiling reveals recognition of lymphoma immunoglobulin neoantigens
- (2017) Michael S. Khodadoust et al. NATURE
- Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells
- (2017) Joshua D. Ooi et al. NATURE
- An immunogenic personal neoantigen vaccine for patients with melanoma
- (2017) Patrick A. Ott et al. NATURE
- MHC-I peptides get out of the groove and enable a novel mechanism of HIV-1 escape
- (2017) Phillip Pymm et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- The SysteMHC Atlas project
- (2017) Wenguang Shao et al. NUCLEIC ACIDS RESEARCH
- GibbsCluster: unsupervised clustering and alignment of peptide sequences
- (2017) Massimo Andreatta et al. NUCLEIC ACIDS RESEARCH
- MHC-I peptides get out of the groove and enable a novel mechanism of HIV-1 escape
- (2017) Phillip Pymm et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- The Intergenic Recombinant HLA-B∗46:01 Has a Distinctive Peptidome that Includes KIR2DL3 Ligands
- (2017) Hugo G. Hilton et al. Cell Reports
- Deciphering HLA-I motifs across HLA peptidomes improves neo-antigen predictions and identifies allostery regulating HLA specificity
- (2017) Michal Bassani-Sternberg et al. PLoS Computational Biology
- An Analysis of Natural T Cell Responses to Predicted Tumor Neoepitopes
- (2017) Anne-Mette Bjerregaard et al. Frontiers in Immunology
- ‘Hotspots’ of Antigen Presentation Revealed by Human Leukocyte Antigen Ligandomics for Neoantigen Prioritization
- (2017) Markus Müller et al. Frontiers in Immunology
- PSSMHCpan: a novel PSSM-based software for predicting class I peptide-HLA binding affinity
- (2017) Geng Liu et al. GigaScience
- Mass spectrometric analysis of the HLA class I peptidome of melanoma cell lines as a promising tool for the identification of putative tumor-associated HLA epitopes
- (2016) Andreas Gloger et al. CANCER IMMUNOLOGY IMMUNOTHERAPY
- The Dendritic Cell Major Histocompatibility Complex II (MHC II) Peptidome Derives from a Variety of Processing Pathways and Includes Peptides with a Broad Spectrum of HLA-DM Sensitivity
- (2016) Cristina C. Clement et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- MHC class I–associated peptides derive from selective regions of the human genome
- (2016) Hillary Pearson et al. JOURNAL OF CLINICAL INVESTIGATION
- Unsupervised HLA Peptidome Deconvolution Improves Ligand Prediction Accuracy and Predicts Cooperative Effects in Peptide–HLA Interactions
- (2016) Michal Bassani-Sternberg et al. JOURNAL OF IMMUNOLOGY
- Pan-Specific Prediction of Peptide–MHC Class I Complex Stability, a Correlate of T Cell Immunogenicity
- (2016) Michael Rasmussen et al. JOURNAL OF IMMUNOLOGY
- The MHC Class II Immunopeptidome of Lymph Nodes in Health and in Chemically Induced Colitis
- (2016) Tim Fugmann et al. JOURNAL OF IMMUNOLOGY
- The Length Distribution of Class I–Restricted T Cell Epitopes Is Determined by Both Peptide Supply and MHC Allele–Specific Binding Preference
- (2016) Thomas Trolle et al. JOURNAL OF IMMUNOLOGY
- Analysis of the HLA-DR peptidome from human dendritic cells reveals high affinity repertoires and nonconventional pathways of peptide generation
- (2016) M. Teresa Ciudad et al. JOURNAL OF LEUKOCYTE BIOLOGY
- Arginine (Di)methylated Human Leukocyte Antigen Class I Peptides Are Favorably Presented by HLA-B*07
- (2016) Fabio Marino et al. JOURNAL OF PROTEOME RESEARCH
- Human Leukocyte Antigen (HLA) Peptides Derived from Tumor Antigens Induced by Inhibition of DNA Methylation for Development of Drug-facilitated Immunotherapy
- (2016) Bracha Shraibman et al. MOLECULAR & CELLULAR PROTEOMICS
- A Molecular Basis for the Presentation of Phosphorylated Peptides by HLA-B Antigens
- (2016) Adán Alpízar et al. MOLECULAR & CELLULAR PROTEOMICS
- Sampling From the Proteome to the Human Leukocyte Antigen-DR (HLA-DR) Ligandome ProceedsViaHigh Specificity
- (2016) Geert P. M. Mommen et al. MOLECULAR & CELLULAR PROTEOMICS
- Large-scale detection of antigen-specific T cells using peptide-MHC-I multimers labeled with DNA barcodes
- (2016) Amalie Kai Bentzen et al. NATURE BIOTECHNOLOGY
- Specialized proteasome subunits have an essential role in the thymic selection of CD8+ T cells
- (2016) Eleanor Z Kincaid et al. NATURE IMMUNOLOGY
- Prospective identification of neoantigen-specific lymphocytes in the peripheral blood of melanoma patients
- (2016) Alena Gros et al. NATURE MEDICINE
- T-Cell Transfer Therapy Targeting Mutant KRAS in Cancer
- (2016) Eric Tran et al. NEW ENGLAND JOURNAL OF MEDICINE
- High-sensitivity HLA class I peptidome analysis enables a precise definition of peptide motifs and the identification of peptides from cell lines and patients’ sera
- (2016) Danilo Ritz et al. PROTEOMICS
- A large fraction of HLA class I ligands are proteasome-generated spliced peptides
- (2016) Juliane Liepe et al. SCIENCE
- Targeting of cancer neoantigens with donor-derived T cell receptor repertoires
- (2016) E. Stronen et al. SCIENCE
- Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames
- (2016) Céline M. Laumont et al. Nature Communications
- Melanoma-specific MHC-II expression represents a tumour-autonomous phenotype and predicts response to anti-PD-1/PD-L1 therapy
- (2016) Douglas B. Johnson et al. Nature Communications
- Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry
- (2016) Michal Bassani-Sternberg et al. Nature Communications
- Use of HLA peptidomics and whole exome sequencing to identify human immunogenic neo-antigens
- (2016) Shelly Kalaora et al. Oncotarget
- Toxoplasma gondii peptide ligands open the gate of the HLA class I binding groove
- (2016) Curtis McMurtrey et al. eLife
- The Peptidome of Behçet's Disease-Associated HLA-B*51:01 Includes Two Subpeptidomes Differentially Shaped by Endoplasmic Reticulum Aminopeptidase 1
- (2016) Pablo Guasp et al. Arthritis & Rheumatology
- Current tools for predicting cancer-specific T cell immunity
- (2016) David Gfeller et al. OncoImmunology
- Gapped sequence alignment using artificial neural networks: application to the MHC class I system
- (2015) Massimo Andreatta et al. BIOINFORMATICS
- Determinants of immunodominance for CD4 T cells
- (2015) AeRyon Kim et al. CURRENT OPINION IN IMMUNOLOGY
- High-resolution analysis of the murine MHC class II immunopeptidome
- (2015) Adriana Sofron et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- T Cells Engineered to Express a T-Cell Receptor Specific for Glypican-3 to Recognize and Kill Hepatoma Cells In Vitro and in Mice
- (2015) Christina Dargel et al. GASTROENTEROLOGY
- Evaluating the Role of HLA-DM in MHC Class II–Peptide Association Reactions
- (2015) Liusong Yin et al. JOURNAL OF IMMUNOLOGY
- Extended O-GlcNAc on HLA Class-I-Bound Peptides
- (2015) Fabio Marino et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Mass Spectrometry of Human Leukocyte Antigen Class I Peptidomes Reveals Strong Effects of Protein Abundance and Turnover on Antigen Presentation
- (2015) Michal Bassani-Sternberg et al. MOLECULAR & CELLULAR PROTEOMICS
- Analysis of Major Histocompatibility Complex (MHC) Immunopeptidomes Using Mass Spectrometry
- (2015) Etienne Caron et al. MOLECULAR & CELLULAR PROTEOMICS
- PD-1 Blockade in Tumors with Mismatch-Repair Deficiency
- (2015) Dung T. Le et al. NEW ENGLAND JOURNAL OF MEDICINE
- 2016 update of the PRIDE database and its related tools
- (2015) Juan Antonio Vizcaíno et al. NUCLEIC ACIDS RESEARCH
- Genomic correlates of response to CTLA-4 blockade in metastatic melanoma
- (2015) E. M. Van Allen et al. SCIENCE
- A dendritic cell vaccine increases the breadth and diversity of melanoma neoantigen-specific T cells
- (2015) B. M. Carreno et al. SCIENCE
- Mutational landscape determines sensitivity to PD-1 blockade in non-small cell lung cancer
- (2015) N. A. Rizvi et al. SCIENCE
- A comprehensive analysis of peptides presented by HLA-A1
- (2015) K. Giam et al. TISSUE ANTIGENS
- Revisiting the Arthritogenic Peptide Theory: Quantitative Not Qualitative Changes in the Peptide Repertoire of HLA-B27 Allotypes
- (2015) Ralf B. Schittenhelm et al. Arthritis & Rheumatology
- MHC Class II Auto-Antigen Presentation is Unconventional
- (2015) Scheherazade Sadegh-Nasseri et al. Frontiers in Immunology
- Systematic identification of personal tumor-specific neoantigens in chronic lymphocytic leukemia
- (2014) M. Rajasagi et al. BLOOD
- Naturally Processed Non-canonical HLA-A*02:01 Presented Peptides
- (2014) Chopie Hassan et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Genomic and bioinformatic profiling of mutational neoepitopes reveals new rules to predict anticancer immunogenicity
- (2014) Fei Duan et al. JOURNAL OF EXPERIMENTAL MEDICINE
- Uncovering the Peptide-Binding Specificities of HLA-C: A General Strategy To Determine the Specificity of Any MHC Class I Molecule
- (2014) Michael Rasmussen et al. JOURNAL OF IMMUNOLOGY
- Checkpoint blockade cancer immunotherapy targets tumour-specific mutant antigens
- (2014) Matthew M. Gubin et al. NATURE
- Predicting immunogenic tumour mutations by combining mass spectrometry and exome sequencing
- (2014) Mahesh Yadav et al. NATURE
- High-throughput epitope discovery reveals frequent recognition of neo-antigens by CD4+ T cells in human melanoma
- (2014) Carsten Linnemann et al. NATURE MEDICINE
- Proteogenomics: concepts, applications and computational strategies
- (2014) Alexey I Nesvizhskii NATURE METHODS
- Genetic Basis for Clinical Response to CTLA-4 Blockade in Melanoma
- (2014) Alexandra Snyder et al. NEW ENGLAND JOURNAL OF MEDICINE
- The immune epitope database (IEDB) 3.0
- (2014) Randi Vita et al. NUCLEIC ACIDS RESEARCH
- The IPD and IMGT/HLA database: allele variant databases
- (2014) James Robinson et al. NUCLEIC ACIDS RESEARCH
- Expanding the detectable HLA peptide repertoire using electron-transfer/higher-energy collision dissociation (EThcD)
- (2014) G. P. M. Mommen et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Cancer Immunotherapy Based on Mutation-Specific CD4+ T Cells in a Patient with Epithelial Cancer
- (2014) E. Tran et al. SCIENCE
- A comprehensive analysis of constitutive naturally processed and presentedHLA-C*04:01(Cw4) - specific peptides
- (2014) R. B. Schittenhelm et al. TISSUE ANTIGENS
- HLA-Binding Properties of Tumor Neoepitopes in Humans
- (2014) E. F. Fritsch et al. Cancer Immunology Research
- A High Throughput MHC II Binding Assay for Quantitative Analysis of Peptide Epitopes
- (2014) Regina Salvat et al. Jove-Journal of Visualized Experiments
- High sensitivity of cancer exome-based CD8 T cell neo-antigen identification
- (2014) Marit M van Buuren et al. OncoImmunology
- Pathways of Antigen Processing
- (2013) Janice S. Blum et al. Annual Review of Immunology
- Composition of the HLA-DR-associated human thymus peptidome
- (2013) Javier A. Collado et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- NetMHCstab- predicting stability of peptide-MHC-I complexes; impacts for cytotoxic T lymphocyte epitope discovery
- (2013) Kasper W. Jørgensen et al. IMMUNOLOGY
- Mining exomic sequencing data to identify mutated antigens recognized by adoptively transferred tumor-reactive T cells
- (2013) Paul F Robbins et al. NATURE MEDICINE
- Properties of MHC Class I Presented Peptides That Enhance Immunogenicity
- (2013) Jorg J. A. Calis et al. PLoS Computational Biology
- HLA-DM Focuses on Conformational Flexibility Around P1 Pocket to Catalyze Peptide Exchange
- (2013) Liusong Yin et al. Frontiers in Immunology
- Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach
- (2012) Massimo Andreatta et al. BIOINFORMATICS
- Exploiting the Mutanome for Tumor Vaccination
- (2012) J. C. Castle et al. CANCER RESEARCH
- Dissection of T-cell Antigen Specificity in Human Melanoma
- (2012) R. S. Andersen et al. CANCER RESEARCH
- Peptide-MHC class I stability is a better predictor than peptide affinity of CTL immunogenicity
- (2012) Mikkel Harndahl et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- Uncovering new aspects of protein interactions through analysis of specificity landscapes in peptide recognition domains
- (2012) David Gfeller FEBS LETTERS
- High Immunogenicity of the Human Leukocyte Antigen Peptidomes of Melanoma Tumor Cells
- (2012) Saulius Jarmalavicius et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Secreted HLA recapitulates the immunopeptidome and allows in-depth coverage of HLA A*02:01 ligands
- (2012) Katherine E. Scull et al. MOLECULAR IMMUNOLOGY
- MUSI: an integrated system for identifying multiple specificity from very large peptide or nucleic acid data sets
- (2012) TaeHyung Kim et al. NUCLEIC ACIDS RESEARCH
- Targeting the tumor mutanome for personalized vaccination therapy
- (2012) Sebastian Kreiter et al. OncoImmunology
- NetMHCcons: a consensus method for the major histocompatibility complex class I predictions
- (2011) Edita Karosiene et al. IMMUNOGENETICS
- Insights into HLA-Restricted T Cell Responses in a Novel Mouse Model of Dengue Virus Infection Point toward New Implications for Vaccine Design
- (2011) Daniela Weiskopf et al. JOURNAL OF IMMUNOLOGY
- The multiple-specificity landscape of modular peptide recognition domains
- (2011) D. Gfeller et al. Molecular Systems Biology
- The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation
- (2011) E. Caron et al. Molecular Systems Biology
- Real-time, high-throughput measurements of peptide–MHC-I dissociation using a scintillation proximity assay
- (2010) Mikkel Harndahl et al. JOURNAL OF IMMUNOLOGICAL METHODS
- Real time detection of peptide–MHC dissociation reveals that improvement of primary MHC-binding residues can have a minimal, or no, effect on stability
- (2010) Kim M. Miles et al. MOLECULAR IMMUNOLOGY
- Soluble plasma HLA peptidome as a potential source for cancer biomarkers
- (2010) M. Bassani-Sternberg et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High-throughput engineering and analysis of peptide binding to class II MHC
- (2010) W. Jiang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding
- (2009) Hao Zhang et al. BIOINFORMATICS
- Derivation of an amino acid similarity matrix for peptide:MHC binding and its application as a Bayesian prior
- (2009) Yohan Kim et al. BMC BIOINFORMATICS
- NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction
- (2009) Morten Nielsen et al. BMC BIOINFORMATICS
- A systematic review of humoral immune responses against tumor antigens
- (2009) Miriam Reuschenbach et al. CANCER IMMUNOLOGY IMMUNOTHERAPY
- Peptide Microarray-Based Identification of Mycobacterium tuberculosis Epitope Binding to HLA-DRB1*0101, DRB1*1501, and DRB1*0401
- (2009) S. Gaseitsiwe et al. Clinical and Vaccine Immunology
- Autophagy and Its Role in MHC-Mediated Antigen Presentation
- (2009) V. L. Crotzer et al. JOURNAL OF IMMUNOLOGY
- Antigen processing influences HIV-specific cytotoxic T lymphocyte immunodominance
- (2009) Stefan Tenzer et al. NATURE IMMUNOLOGY
- Phosphorylated self-peptides alter human leukocyte antigen class I-restricted antigen presentation and generate tumor-specific epitopes
- (2009) Jan Petersen et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- HLA class I supertypes: a revised and updated classification
- (2008) John Sidney et al. BMC IMMUNOLOGY
- The MHC class I peptide repertoire is molded by the transcriptome
- (2008) Marie-Hélène Fortier et al. JOURNAL OF EXPERIMENTAL MEDICINE
- Conditional MHC class I ligands and peptide exchange technology for the human MHC gene products HLA-A1, -A3, -A11, and -B7
- (2008) A. H. Bakker et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A Systematic Assessment of MHC Class II Peptide Binding Predictions and Evaluation of a Consensus Approach
- (2008) Peng Wang et al. PLoS Computational Biology
Find the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
SearchAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started