Zoë Steier

The paper shows preselection CD4+CD8+ thymocytes undergo gene expression changes linked to reduced TCR responsiveness and impaired CD4 fate gene upregulation, connecting these changes to T cell lineage commitment.

This study uses CITE-seq to analyze thymocyte development and identifies TCR signaling waves and the TCR/calcineurin/NFAT/GATA3 axis as drivers of CD4/CD8 lineage commitment.

This study shows that low self-reactive thymocytes have shorter TCR signals, delayed positive selection, and retain preselection gene expression signatures, suggesting ion channels modulate TCR sensitivity during development.

The paper introduces totalVI, a probabilistic framework for joint analysis of RNA and protein data from single cells, demonstrating its utility in integration, dimensionality reduction, clustering, and differential expression testing.

The paper introduces totalVI, a probabilistic framework for analyzing CITE-seq data by jointly modeling RNA and protein measurements, addressing technical noise and enabling batch correction.