Allison P. Siegenfeld

Coupling CRISPR Scanning with Targeted Chromatin Accessibility Profiling using a Double-Stranded DNA Deaminase

This paper introduces TDAC-seq, a method combining CRISPR perturbations with chromatin accessibility profiling to study cis-regulatory elements at single-nucleotide resolution.

DNA methylation insulates genic regions from CTCF loops near nuclear speckles

The paper investigates how DNA methylation affects CTCF-mediated chromatin loops and gene expression by using DNMT1 inhibition and targeted protein degradation.

CTCF/cohesin organize the ground state of chromatin-nuclear speckle association

This study identifies CTCF and cohesin as essential for chromatin-nuclear speckle association, showing their role in gene inducibility and relevance to disease.

Polycomb-lamina antagonism partitions heterochromatin at the nuclear periphery

The paper develops LIMe-Hi-C to study how Polycomb repressive complex 2 and lamina association regulate heterochromatin sub-compartments.