Transcription factor binding across the genome is regulated by DNA sequence and
chromatin features. However, it is not yet possible to quantify the impact of chromatin context …

A vast number of small-molecule ligands, including therapeutic drugs under development
and in clinical use, elicit their effects by binding specific proteins associated with the …

Gene expression is controlled by the collective binding of transcription factors to cis-
regulatory regions. Deciphering gene-centered regulatory networks is vital to understanding …

Gene expression–a key feature for modulating cell fate–is regulated in part by histone
modifications, which modulate accessibility of the chromatin to transcription factors. Until …

To enable low-cost, high-throughput generation of cistrome and epicistrome maps for any
organism, we developed DNA affinity purification sequencing (DAP-seq), a transcription …

Proteins, such as many transcription factors, that bind to specific DNA sequences are
essential for the proper regulation of gene expression. Identifying the specific sequences …

Precise control of gene expression requires the coordinated action of multiple factors at cis-
regulatory elements. We recently developed single-molecule footprinting to simultaneously …

Cell-to-cell variation is a universal feature of life that affects a wide range of biological
phenomena, from developmental plasticity, to tumour heterogeneity. Although recent …

DNase I hypersensitive sites (DHSs) are generic markers of regulatory DNA,,,–and contain
genetic variations associated with diseases and phenotypic traits,–. We created high …

Recent technological developments have revolutionized our understanding of
transcriptional regulation by providing an unprecedented ability to interrogate in vivo …