B. Chain

Single-cell transcriptome and T cell receptor profiling of the tuberculin skin test

The paper profiles single-cell transcriptomes and T cell receptors in human tuberculin skin tests to characterize the immune response to Mycobacterium tuberculosis.

Systematic analysis of CDR contacts and sequence constraints between T cell receptor αβ chains.

This study systematically analyzes CDR contacts and sequence constraints between TCR αβ chains using TCR structures and mutual information, showing sequence dependencies and co-evolution patterns.

tidytcells: standardizer for TCR/MHC nomenclature

tidytcells standardizes TCR/MHC nomenclature across datasets, enabling consistent computational analysis of TCR repertoires.

Distinct T Cell Receptor (TCR) gene segment usage and MHC-restriction between foetal and adult thymus

This study compares TCR gene segment usage and MHC-restriction in fetal and adult mouse thymocytes, finding distinct repertoire characteristics in fetal thymus.

FUME-TCRseq: Sensitive and accurate sequencing of the T-cell receptor from limited input of degraded RNA

FUME-TCRseq is a sensitive and accurate method for TCR sequencing from low-quality RNA, outperforming existing methods in detecting clonotypes and enabling analysis of archival tissue samples.

Large clones of pre-existing T cells drive early immunity against SARS-COV-2 and LCMV infection.

The paper identifies high frequency naive T cell precursors that drive rapid T cell responses during early SARS-COV-2 and LCMV infections.

Population based selection shapes the T cell receptor repertoire during thymic development

The paper studies how thymic selection shapes the TCR repertoire during T cell development and finds that selection acts statistically rather than through specific sequence suppression.

Antigen experience relaxes the organisational structure of the T cell receptor repertoire

The paper examines how antigen exposure affects the structural organization of T cell receptor repertoires in mice across different life stages and infection states.

Predicting T cell receptor antigen specificity from structural features derived from homology models of receptor-peptide-major histocompatibility complexes.

The paper develops a classifier to predict TCR binding using structural features from homology models of TCR-pMHC complexes, achieving comparable performance to sequence-based methods with smaller training sets.

T-cell Receptor Diversity Estimates for Repertoires (TCRDivER) uses sequence similarity to find signatures of immune response

TCRDivER analyzes T-cell receptor repertoires using sequence similarity to identify immune response signatures in murine and human samples.

The naive T-cell receptor repertoire has an extremely broad distribution of clone sizes

The paper estimates the distribution of clone sizes in the human naive T-cell receptor repertoire and finds that while most clones are small, some large clones exist due to peripheral selection.

Immune profiling of cord blood after prolonged rupture of membranes.

This study identifies transcriptomic changes in cord blood following prolonged rupture of membranes, suggesting immune responses to potential in utero infections.