A multi-omic analysis shows that during mouse brain development, neural stem cells gradually activate an astrocytic gene expression and epigenomic signature, along with more insights on sequence-based prediction, TF cooperativity, and more (in collaboration with the Bonev lab).
Time-Aligned Hourglass Gastrulation Models in Rabbit and Mouse
Understanding the embryonic phenotype of TET loss (with the Stelzer lab)
IceQream (IQ) is a transparent, robust tool for predicting chromatin accessibility from DNA sequences using mechanistic models of transcription factor binding. Unlike black-box methods, IQ offers interpretable insights into gene regulation and cell state transitions across single-cell data.
Mechanisms of plasticity and commitment in plants (in collaboration with Y. Eshed group)
DNA methyltransferases 3A and 3B target specific sequences during mouse gastrulation
Understanding human longevity using EHR data
A recursive divide and conquer algorithm allowing efficient decomposition of scRNA-seq datasets of any size.
Profiling the DNA methylation landscape of 1538 breast cancers.
Personalized lab test models quantify disease potentials in healthy individuals.
A time-resolved, high-resolution model charts differentiation dynamics during mouse gastrulation and reveals that for most lineages, cell fates arise from multi-furcation events rather than classical tree-like bifurcation (in collaboration with the Stelzer group)
