Sebastian Prillo

NovaClone improves clonal and subclonal genotyping in single-cell lineage tracing by addressing technical artifacts and providing quality control metrics.

PEINT simulates realistic protein evolution by modeling sequence changes over time, generating functional proteins that retain enzymatic activity.

This paper introduces GPN-Star, a phylogeny-informed genomic language model that improves variant effect prediction across species and evolutionary timescales.

This paper introduces ConvexML, a fast and accurate method for estimating branch lengths in phylogenetic trees under irreversible mutation models, with applications to CRISPR/Cas9 lineage tracing data.

This paper introduces a homoplasy-based method to assess lineage tree reliability using Cas9-induced mutations, showing it outperforms parsimony in simulations.

This paper develops a Neighbor-Joining algorithm with theoretical guarantees for reconstructing phylogenies from CRISPR-Cas9 lineage tracing data, showing improved performance on simulated and real data.