[HTML][HTML] 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 …

Current tools for predicting cancer-specific T cell immunity

D Gfeller, M Bassani-Sternberg, J Schmidt… - …, 2016 - Taylor & Francis
Tumor exome and RNA sequencing data provide a systematic and unbiased view on cancer-
specific expression, over-expression, and mutations of genes, which can be mined for …

[HTML][HTML] The interplay between citrullination and HLA-DRB1 polymorphism in shaping peptide binding hierarchies in rheumatoid arthritis

YT Ting, J Petersen, SH Ramarathinam… - Journal of Biological …, 2018 - ASBMB
The HLA-DRB1 locus is strongly associated with rheumatoid arthritis (RA) susceptibility,
whereupon citrullinated self-peptides bind to HLA-DR molecules bearing the shared epitope …

[HTML][HTML] Pleiotropic consequences of metabolic stress for the major histocompatibility complex class II molecule antigen processing and presentation machinery

CC Clement, PP Nanaware, T Yamazaki, MP Negroni… - Immunity, 2021 - cell.com
Hyperglycemia and hyperlipidemia are often observed in individuals with type II diabetes
(T2D) and related mouse models. One dysmetabolic biochemical consequence is the non …

[HTML][HTML] Repertoire-scale determination of class II MHC peptide binding via yeast display improves antigen prediction

CG Rappazzo, BD Huisman, ME Birnbaum - Nature communications, 2020 - nature.com
CD4+ helper T cells contribute important functions to the immune response during pathogen
infection and tumor formation by recognizing antigenic peptides presented by class II major …

[HTML][HTML] Broadly recognized, cross-reactive SARS-CoV-2 CD4 T cell epitopes are highly conserved across human coronaviruses and presented by common HLA …

A Becerra-Artiles, JM Calvo-Calle, PP Nanaware… - Cell Reports, 2022 - cell.com
Sequence homology between SARS-CoV-2 and common-cold human coronaviruses
(HCoVs) raises the possibility that memory responses to prior HCoV infection can affect T …

A high-throughput yeast display approach to profile pathogen proteomes for MHC-II binding

BD Huisman, Z Dai, DK Gifford, ME Birnbaum - Elife, 2022 - elifesciences.org
T cells play a critical role in the adaptive immune response, recognizing peptide antigens
presented on the cell surface by major histocompatibility complex (MHC) proteins. While …

High-resolution profiling of MHC II peptide presentation capacity reveals SARS-CoV-2 CD4 T cell targets and mechanisms of immune escape

FJ Obermair, F Renoux, S Heer, CH Lee… - Science …, 2022 - science.org
Understanding peptide presentation by specific MHC alleles is fundamental for controlling
physiological functions of T cells and harnessing them for therapeutic use. However …

[HTML][HTML] Immunopeptidome profiling of human coronavirus OC43-infected cells identifies CD4 T-cell epitopes specific to seasonal coronaviruses or cross-reactive with …

A Becerra-Artiles, PP Nanaware, K Muneeruddin… - PLoS …, 2023 - journals.plos.org
Seasonal “common-cold” human coronaviruses are widely spread throughout the world and
are mainly associated with mild upper respiratory tract infections. The emergence of highly …

[HTML][HTML] Quantitative affinity measurement of small molecule ligand binding to major histocompatibility complex class-I–related protein 1 MR1

CJH Wang, W Awad, L Liu, JYW Mak… - Journal of Biological …, 2022 - ASBMB
The Major Histocompatibility Complex class I–related protein 1 (MR1) presents small
molecule metabolites, drugs, and drug-like molecules that are recognized by MR1-reactive T …