Mammalian genomes express two principal gene categories through RNA polymerase II-
mediated transcription: protein-coding transcription units and non-coding RNA transcription …

Information in mRNA has largely been thought to be confined to its nucleotide sequence.
However, the advent of mapping techniques to detect modified nucleotides has revealed …

Over the past decade, RNA sequencing (RNA-seq) has become an indispensable tool for
transcriptome-wide analysis of differential gene expression and differential splicing of …

Long non-coding RNAs (lncRNAs) are diverse transcription products emanating from
thousands of loci in mammalian genomes. Cis-acting lncRNAs, which constitute a …

The proper activities of enhancers and gene promoters are essential for coordinated
transcription within a cell. Although diverse methodologies have been developed to identify …

N 6-methyladenosine (m6A) regulates stability and translation of messenger RNA (mRNA)
in various biological processes. In this work, we show that knockout of the m6A writer Mettl3 …

It remains unclear why acute depletion of CTCF (CCCTC-binding factor) and cohesin only
marginally affects expression of most genes despite substantially perturbing three …

Precise spatio–temporal control of gene activity is essential for organismal development,
growth, and survival in a changing environment. Decisive steps in gene regulation involve …

The journey of RNA polymerase II (Pol II) as it transcribes a gene is anything but a smooth
ride. Transcript elongation is discontinuous and can be perturbed by intrinsic regulatory …

Conflicts between transcription and replication are a potent source of DNA damage. Co-
transcriptional R-loops could aggravate such conflicts by creating an additional barrier to …