Odhran Casey

A Reference Landscape of Regulatory T Cell States in Mice

The paper defines a unified framework for Treg heterogeneity using a joint RNA-protein model, identifying eight conserved clusters across tissues and conditions.

immgenT: A Comprehensive Reference of Convergent T-cell States in the Mouse

immgenT creates a comprehensive T-cell molecular atlas across mouse organs and disease states, identifying 8 lineages and 107 clusters using deep generative models and integrating external datasets.

A comprehensive reference of mouse CD8αβ T cell differentiation states

The paper establishes immgenT-CD8 as a comprehensive reference for mouse CD8αβ T cell differentiation states across diverse immunological contexts.

The αβTCR repertoire at scale in the immgenT dataset

The paper analyzes the αβTCR repertoire across 734 mouse samples to uncover patterns in TCR diversity, non-random joining, and clonal expansion.

Diverse Microbial Exposure Enhances CD8+ T Cell Effector Memory Output and Function

The paper compares T cell landscapes in mice with normalized microbial exposure (NME) and specific pathogen-free (SPF) conditions, finding increased effector memory CD8+ T cells in NME mice.

Genomic Specificity of Anti-TCR mAbs determined by single-cell RNAseq

The paper identifies TCR-V gene usage patterns in T cells sorted by anti-TCR mAbs using single-cell RNAseq and finds enriched ERV1-family LTR expression in specific TRBV regions.