Genetic variation in MHC proteins is associated with T cell receptor expression biases

Autoimmune diseases — connecting risk alleles with molecular traits of the immune system

(2016) Maria Gutierrez-Arcelus et al.   NATURE REVIEWS GENETICS

How structural adaptability exists alongside HLA-A2 bias in the human αβ TCR repertoire

(2016) Sydney J. Blevins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional evidence for TCR-intrinsic specificity for MHCII

(2016) Heather L. Parrish et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

T Cell Antigen Receptor Recognition of Antigen-Presenting Molecules

(2015) Jamie Rossjohn et al.   Annual Review of Immunology

Coevolution of T-cell receptors with MHC and non-MHC ligands

(2015) Caitlin D. Castro et al.   IMMUNOLOGICAL REVIEWS

Associations of human leukocyte antigens with autoimmune diseases: challenges in identifying the mechanism

(2015) Hiroko Miyadera et al.   JOURNAL OF HUMAN GENETICS

Additive and interaction effects at three amino acid positions in HLA-DQ and HLA-DR molecules drive type 1 diabetes risk

(2015) Xinli Hu et al.   NATURE GENETICS

T cell receptor reversed polarity recognition of a self-antigen major histocompatibility complex

(2015) Dennis X Beringer et al.   NATURE IMMUNOLOGY

Structural interplay between germline interactions and adaptive recognition determines the bandwidth of TCR-peptide-MHC cross-reactivity

(2015) Jarrett J Adams et al.   NATURE IMMUNOLOGY

Dissection of a Complex Disease Susceptibility Region Using a Bayesian Stochastic Search Approach to Fine Mapping

(2015) Chris Wallace et al.   PLoS Genetics

An old Twist in HLA-A: CDR3α Hook up at an R65-joint

(2015) Joseph S. Murray   Frontiers in Immunology

Somatic Variation of T-Cell Receptor Genes Strongly Associate with HLA Class Restriction

(2015) Paul L. Klarenbeek et al.   PLoS One

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

IMGT®, the international ImMunoGeneTics information system® 25 years on

(2014) Marie-Paule Lefranc et al.   NUCLEIC ACIDS RESEARCH

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

Distinctive properties of identical twins' TCR repertoires revealed by high-throughput sequencing

(2014) I. V. Zvyagin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel

(2014) Olivier Delaneau et al.   Nature Communications

Integrating Functional Data to Prioritize Causal Variants in Statistical Fine-Mapping Studies

(2014) Gleb Kichaev et al.   PLoS Genetics

Lck Availability during Thymic Selection Determines the Recognition Specificity of the T Cell Repertoire

(2013) François Van Laethem et al.   CELL

Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals

(2013) A. Battle et al.   GENOME RESEARCH

Imputing Amino Acid Polymorphisms in Human Leukocyte Antigens

(2013) Xiaoming Jia et al.   PLoS One

Asymmetric thymocyte death underlies the CD4:CD8 T-cell ratio in the adaptive immune system

(2013) C. Sinclair et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Fine-Mapping the Genetic Association of the Major Histocompatibility Complex in Multiple Sclerosis: HLA and Non-HLA Effects

(2013) Nikolaos A. Patsopoulos et al.   PLoS Genetics

A Closer Look at TCR Germline Recognition

(2012) K. Christopher Garcia et al.   IMMUNITY

Exploiting a natural conformational switch to engineer an interleukin-2 ‘superkine’

(2012) Aron M. Levin et al.   NATURE

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Five amino acids in three HLA proteins explain most of the association between MHC and seropositive rheumatoid arthritis

(2012) Soumya Raychaudhuri et al.   NATURE GENETICS

Bayesian refinement of association signals for 14 loci in 3 common diseases

(2012) Julian B Maller et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The T-cell receptor is not hardwired to engage MHC ligands

(2012) S. J. Holland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconciling views on T cell receptor germline bias for MHC

(2012) K. Christopher Garcia   TRENDS IN IMMUNOLOGY

Quantitative Trait Loci for CD4:CD8 Lymphocyte Ratio Are Associated with Risk of Type 1 Diabetes and HIV-1 Immune Control

(2010) Manuel A.R. Ferreira et al.   AMERICAN JOURNAL OF HUMAN GENETICS

GCTA: A Tool for Genome-wide Complex Trait Analysis

(2010) Jian Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Hard wiring of T cell receptor specificity for the major histocompatibility complex is underpinned by TCR adaptability

(2010) S. R. Burrows et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Overlap and Effective Size of the Human CD8+ T Cell Receptor Repertoire

(2010) H. S. Robins et al.   Science Translational Medicine

A Commentary on ‘Common SNPs Explain a Large Proportion of the Heritability for Human Height’ by Yang et al. (2010)

(2010) Peter M. Visscher et al.   Twin Research and Human Genetics

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Public clonotype usage identifies protective Gag-specific CD8+T cell responses in SIV infection

(2009) David A. Price et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Germline-encoded amino acids in the αβ T-cell receptor control thymic selection

(2009) James P. Scott-Browne et al.   NATURE

The molecular basis of TCR germline bias for MHC is surprisingly simple

(2009) K Christopher Garcia et al.   NATURE IMMUNOLOGY

A Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies

(2009) Bryan N. Howie et al.   PLoS Genetics

Evolutionarily Conserved Amino Acids That Control TCR-MHC Interaction

(2008) Philippa Marrack et al.   Annual Review of Immunology

Crossreactive T Cells Spotlight the Germline Rules for αβ T Cell-Receptor Interactions with MHC Molecules

(2008) Shaodong Dai et al.   IMMUNITY