T-Cell Repertoire Characterization by Huang, Huang; Davis, Mark M.;

Long description:

This volume provides a comprehensive compilation of protocols in T cell repertoire analysis, from the leading experts in the field, representing both well-established methods and cutting-edge advances. Chapters broadly cover the emerging new T cell subsets, sequencing technologies for capturing TCR repertoire, and computational tools for analyzing an ever-growing TCR repertoire, with a particular focus on how to link the sequence with TCR antigen specificity. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls.

Authoritative and cutting-edge, T-Cell Repertoire Characterization aims to be a useful practical guide to researches to help further their study in this field.

Table of Contents:

Ligand identification for Orphan MHC-agnostic T-cell receptors by whole genome CRISPR-Cas9 screening.- Discovery of HLA-E-presented epitopes: MHC-E/peptide binding and T cell recognition.- Identification of human antigen-specific T cells using class II MHC tetramer staining and enrichment.- Characterization of KIR+CD8+ regulatory T cells in humans by scRNA- and TCR-seq.- Detection of α-synuclein-specific T cells in Parkinson’s disease.- The intra-tumoural T cell receptor repertoire – steps towards a useful clinical biomarker.- Enriching and Characterizing T-Cell Repertoires from 3’ Barcoded Single-Cell Whole Transcriptome Amplification Products.- Tetramer associated T cell receptor sequencing.- T-cell Repertoire Characterization.- Characterization of mouse CD4 TCR and its targeting antigen.- Rapid identification of MHCII-binding peptides through microsphere-assisted peptide screening (MAPS).- A high throughput strategy for T-Cell Receptor cloning and expression.- Epitope-specific T-cell receptor data and tools in the Immune Epitope Database.- A Bioinformatic Framework for Dissecting the Dynamics of T cells from Single-Cell Transcriptome.- Grouping T-Cell Antigen Receptors by Specificity.- Flexible Distance-Based TCR Analysis in Python with tcrdist3.- Multimodal T cell analysis with CoNGA.