Maria Avdeeva

ArchVelo models gene regulation and infers cell trajectories using scATAC-seq and scRNA-seq data, improving accuracy and identifying new differentiation trajectories in immune cells.

DAISEE improves integration of single-cell RNA-seq data from perturbation experiments, revealing ERK signaling induces novel transcriptional states in zebrafish embryos.

The paper develops a generative model to study the first cell fate bifurcation in mammalian development, revealing stochastic dynamics and temporal heterogeneity in key transcription factors.

This study quantifies YAP dynamics during preimplantation embryo development, showing that cell cycle mechanisms, not mechanical perturbations, primarily regulate YAP levels for cell fate decisions.