Recent years have witnessed a sea change in our understanding of transcription regulation:
whereas traditional models focused solely on the events that brought RNA polymerase II …

Histone side chains are post-translationally modified at multiple sites, including at Lys36 on
histone H3 (H3K36). Several enzymes from yeast and humans, including the …

We provide a protocol for precision nuclear run-on sequencing (PRO-seq) and its variant,
PRO-cap, which map the location of active RNA polymerases (PRO-seq) or transcription …

Transcription regulation occurs frequently through promoter-associated pausing of RNA
polymerase II (Pol II). We developed a precision nuclear run-on and sequencing (PRO-seq) …

Long noncoding RNAs (lncRNAs) are key regulators of chromatin state, yet the nature and
sites of RNA-chromatin interaction are mostly unknown. Here we introduce Chromatin …

Argonaute proteins of the PIWI clade are central to transposon silencing in animal gonads.
Their target specificity is defined by 23–30 nt PIWI interacting RNAs (piRNAs), which mostly …

Elongation is becoming increasingly recognized as a critical step in eukaryotic
transcriptional regulation. Although traditional genetic and biochemical studies have …

Small-molecule BET inhibitors interfere with the epigenetic interactions between acetylated
histones and the bromodomains of the BET family proteins, including BRD4, and they …

In eukaryotes, all DNA-templated reactions occur in the context of chromatin. Nucleosome
packaging inherently restricts DNA accessibility for regulatory proteins but also provides an …

Long noncoding RNAs (lncRNAs) have important regulatory roles and can function at the
level of chromatin. To determine where lncRNAs bind to chromatin, we developed capture …