Sarah R. Chapin

The paper identifies 17 human thymic epithelial cell subsets using single-cell data and shows they share a common ancestor and regulatory logic, with some conservation in mice.

The paper shows that sparse, random sampling of self peptides in the thymus is sufficient for T cell tolerance to most peripheral self peptides, supported by experimental data and machine learning analysis.

The paper introduces a database of TCR-peptide mutational assays and a Bayesian model to predict TCR cross-reactivity, showing improved performance over existing methods.

This paper introduces copepodTCR, a tool for designing and interpreting TCR specificity assays, which efficiently identifies antigen-specific TCRs using combinatorial peptide pooling and Bayesian modeling.