mRNAs, proteins and the emerging principles of gene expression control

C Buccitelli, M Selbach - Nature Reviews Genetics, 2020‏ - nature.com
Gene expression involves transcription, translation and the turnover of mRNAs and proteins.
The degree to which protein abundances scale with mRNA levels and the implications in …

Promoter-proximal pausing of RNA polymerase II: a nexus of gene regulation

L Core, K Adelman - Genes & development, 2019‏ - genesdev.cshlp.org
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 …

Transcription shapes 3D chromatin organization by interacting with loop extrusion

EJ Banigan, W Tang, AA van den Berg… - Proceedings of the …, 2023‏ - pnas.org
Cohesin folds mammalian interphase chromosomes by extruding the chromatin fiber into
numerous loops.“Loop extrusion” can be impeded by chromatin-bound factors, such as …

Mediator and RNA polymerase II clusters associate in transcription-dependent condensates

WK Cho, JH Spille, M Hecht, C Lee, C Li, V Grube… - Science, 2018‏ - science.org
Models of gene control have emerged from genetic and biochemical studies, with limited
consideration of the spatial organization and dynamics of key components in living cells. We …

Imaging dynamic and selective low-complexity domain interactions that control gene transcription

S Chong, C Dugast-Darzacq, Z Liu, P Dong, GM Dailey… - Science, 2018‏ - science.org
INTRODUCTION DNA binding transcription factors (TFs) are quintessential regulators of
eukaryotic gene expression. Early studies of TFs revealed their well-structured DNA binding …

RNA polymerase II clustering through carboxy-terminal domain phase separation

M Boehning, C Dugast-Darzacq, M Rankovic… - Nature structural & …, 2018‏ - nature.com
The carboxy-terminal domain (CTD) of RNA polymerase (Pol) II is an intrinsically disordered
low-complexity region that is critical for pre-mRNA transcription and processing. The CTD …

RNA polymerase II speed: a key player in controlling and adapting transcriptome composition

L Muniz, E Nicolas, D Trouche - The EMBO journal, 2021‏ - embopress.org
Abstract RNA polymerase II (RNA Pol II) speed or elongation rate, ie, the number of
nucleotides synthesized per unit of time, is a major determinant of transcriptome …

Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II

H Lu, D Yu, AS Hansen, S Ganguly, R Liu, A Heckert… - Nature, 2018‏ - nature.com
Hyperphosphorylation of the C-terminal domain (CTD) of the RPB1 subunit of human RNA
polymerase (Pol) II is essential for transcriptional elongation and mRNA processing,–. The …

Illuminating RNA biology through imaging

P Le, N Ahmed, GW Yeo - Nature Cell Biology, 2022‏ - nature.com
RNA processing plays a central role in accurately transmitting genetic information into
functional RNA and protein regulators. To fully appreciate the RNA life-cycle, tools to …

Liquid–liquid phase separation in chromatin

K Rippe - Cold Spring Harbor perspectives in biology, 2022‏ - cshperspectives.cshlp.org
In eukaryotic cells, protein and RNA factors involved in genome activities like transcription,
RNA processing, DNA replication, and repair accumulate in self-organizing membraneless …