Stephen J. Staklinski

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 introduces scPFA, a lineage-informed factor analysis method, to uncover heritable gene expression programs from single-cell lineage-tracing data.

This paper introduces a variational inference method for Bayesian phylogenetic reconstruction, showing faster speeds than traditional Bayesian methods on real-world datasets.

LaVOUS models gene-expression dynamics along cell lineages, identifying lineage-associated changes in cancer, B cells, and brain development.

This paper introduces BEAM, a Bayesian framework for inferring tissue migration histories in metastatic cancer from lineage tracing data, showing improved performance over existing methods.

This study evaluates AlphaMissense's ability to classify ASNS variants in ASNSD, finding it accurately identifies most known pathogenic variants and provides a useful tool for variant classification.