Ehsan Habibi

The paper shows that ependymal cell cilia beating regulates neural stem cell quiescence through mechanical forces involving PKD1/2 and TRPM3.

This paper introduces UTMM, a method to simultaneously measure transcriptomes and mechanical properties in intact embryos, revealing coupling between RNA expression and intracellular compliance during early development.

This study investigates DNA methylation changes in SetDB1-deficient mouse ESCs, revealing its role in silencing retrotransposons and imprinted regions through coordination with H3K9me3.

The paper introduces ExIGS, a method linking nuclear abnormalities to chromatin repression hotspots in progeria fibroblasts.

The paper introduces inCITE-seq, a method for simultaneous measurement of intranuclear proteins and gene expression in single cells, and demonstrates its application in analyzing neuronal activity in mouse brain tissue.

The paper introduces CISI, a method that uses compressed sensing to efficiently recover spatial gene expression data from composite measurements, achieving high efficiency and scalability.

The paper generates a single-cell RNA-seq and ATAC-seq atlas of the developing mouse neocortex and reconstructs developmental trajectories to infer gene regulatory programs and identify lineage-specific developmental abnormalities.