A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction
Human leukocyte antigen class I (HLA-I) molecules are encoded by major histocompatibility
complex (MHC) class I loci in humans. The binding and interaction between HLA-I …
complex (MHC) class I loci in humans. The binding and interaction between HLA-I …
Predicting antigen presentation—what could we learn from a million peptides?
D Gfeller, M Bassani-Sternberg - Frontiers in immunology, 2018 - frontiersin.org
Antigen presentation lies at the heart of immune recognition of infected or malignant cells.
For this reason, important efforts have been made to predict which peptides are more likely …
For this reason, important efforts have been made to predict which peptides are more likely …
NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand …
Major histocompatibility complex (MHC) molecules are expressed on the cell surface, where
they present peptides to T cells, which gives them a key role in the development of T-cell …
they present peptides to T cells, which gives them a key role in the development of T-cell …
Improved prediction of MHC II antigen presentation through integration and motif deconvolution of mass spectrometry MHC eluted ligand data
B Reynisson, C Barra, S Kaabinejadian… - Journal of proteome …, 2020 - ACS Publications
Major histocompatibility complex II (MHC II) molecules play a vital role in the onset and
control of cellular immunity. In a highly selective process, MHC II presents peptides derived …
control of cellular immunity. In a highly selective process, MHC II presents peptides derived …
[HTML][HTML] Defining HLA-II ligand processing and binding rules with mass spectrometry enhances cancer epitope prediction
Increasing evidence indicates CD4+ T cells can recognize cancer-specific antigens and
control tumor growth. However, it remains difficult to predict the antigens that will be …
control tumor growth. However, it remains difficult to predict the antigens that will be …
The length distribution and multiple specificity of naturally presented HLA-I ligands
D Gfeller, P Guillaume, J Michaux, HS Pak… - The Journal of …, 2018 - journals.aai.org
HLA-I molecules bind short peptides and present them for recognition by CD8+ T cells. The
length of HLA-I ligands typically ranges from 8 to 12 aa, but variability is observed across …
length of HLA-I ligands typically ranges from 8 to 12 aa, but variability is observed across …
Accurate MHC motif deconvolution of immunopeptidomics data reveals a significant contribution of DRB3, 4 and 5 to the total DR immunopeptidome
Mass spectrometry (MS) based immunopeptidomics is used in several biomedical
applications including neo-epitope discovery in oncology, next-generation vaccine …
applications including neo-epitope discovery in oncology, next-generation vaccine …
NNAlign_MA; MHC peptidome deconvolution for accurate MHC binding motif characterization and improved T-cell epitope predictions
The set of peptides presented on a cell's surface by MHC molecules is known as the
immunopeptidome. Current mass spectrometry technologies allow for identification of large …
immunopeptidome. Current mass spectrometry technologies allow for identification of large …
The human immunopeptidome project: a roadmap to predict and treat immune diseases
JA Vizcaíno, P Kubiniok, KA Kovalchik, Q Ma… - Molecular & Cellular …, 2020 - ASBMB
The science that investigates the ensembles of all peptides associated to human leukocyte
antigen (HLA) molecules is termed" immunopeptidomics" and is typically driven by mass …
antigen (HLA) molecules is termed" immunopeptidomics" and is typically driven by mass …
DeepRescore: leveraging deep learning to improve peptide identification in immunopeptidomics
The identification of major histocompatibility complex (MHC)‐binding peptides in mass
spectrometry (MS)‐based immunopeptideomics relies largely on database search engines …
spectrometry (MS)‐based immunopeptideomics relies largely on database search engines …