Faye Chong

Pertpy provides a modular framework for analyzing large-scale perturbation single-cell experiments, offering tools for metadata annotation and perturbation distance calculations.

The paper integrates single-cell transcriptomics and epigenomics to show how neural stem cells shift lineage bias and epigenetic states during mouse corticogenesis.

The paper maps 3D genome organization, chromatin accessibility, and gene expression in primate neural stem cells to identify human-specific epigenetic signatures and their role in gene regulation.

The paper investigates how cellular and epigenetic contexts influence Neurog2 binding and its functional consequences in mouse embryonic stem cells and neural progenitor cells, revealing cell-type-specific chromatin accessibility and interactors.

This study identifies innate immune memory after brain injury as a driver of chronic cardiac dysfunction, showing that post-stroke epigenetic changes in myeloid cells lead to inflammation and fibrosis in the heart.

The paper uses multiomics data to map regulatory changes in the mouse neocortex during development, identifying novel enhancer-gene pairs and epigenetic remodeling patterns.