Maria Avdeeva

ArchVelo: Archetypal Velocity Modeling for Single-cell Multi-omic Trajectories

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.

Disrupted developmental signaling induces novel transcriptional states

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

Generative model for the first cell fate bifurcation inmammalian development

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.

Geometric, cell cycle and maternal-to-zygotic transition-associated YAP dynamics during preimplantation embryo development

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.