The Mediator complex as a master regulator of transcription by RNA polymerase II

WF Richter, S Nayak, J Iwasa, DJ Taatjes - Nature Reviews Molecular …, 2022 - nature.com
The Mediator complex, which in humans is 1.4 MDa in size and includes 26 subunits,
controls many aspects of RNA polymerase II (Pol II) function. Apart from its size, a defining …

mRNA regulation by RNA modifications

WV Gilbert, S Nachtergaele - Annual Review of Biochemistry, 2023 - annualreviews.org
Chemical modifications on mRNA represent a critical layer of gene expression regulation.
Research in this area has continued to accelerate over the last decade, as more …

CORUM: the comprehensive resource of mammalian protein complexes–2022

G Tsitsiridis, R Steinkamp, M Giurgiu… - Nucleic acids …, 2023 - academic.oup.com
The CORUM database has been providing comprehensive reference information about
experimentally characterized, mammalian protein complexes and their associated biological …

OpenCell: Endogenous tagging for the cartography of human cellular organization

NH Cho, KC Cheveralls, AD Brunner, K Kim… - Science, 2022 - science.org
Elucidating the wiring diagram of the human cell is a central goal of the postgenomic era.
We combined genome engineering, confocal live-cell imaging, mass spectrometry, and data …

The IntAct database: efficient access to fine-grained molecular interaction data

N Del Toro, A Shrivastava, E Ragueneau… - Nucleic acids …, 2022 - academic.oup.com
The IntAct molecular interaction database (https://www. ebi. ac. uk/intact) is a curated
resource of molecular interactions, derived from the scientific literature and from direct data …

Rho GTPase signaling in cancer progression and dissemination

E Crosas-Molist, R Samain… - Physiological …, 2022 - journals.physiology.org
Rho GTPases are a family of small G proteins that regulate a wide array of cellular
processes related to their key roles controlling the cytoskeleton. Cancer is a multistep …

Scalable genetic screening for regulatory circuits using compressed Perturb-seq

D Yao, L Binan, J Bezney, B Simonton… - Nature …, 2024 - nature.com
Pooled CRISPR screens with single-cell RNA sequencing readout (Perturb-seq) have
emerged as a key technique in functional genomics, but they are limited in scale by cost and …

A proteome-wide atlas of drug mechanism of action

DC Mitchell, M Kuljanin, J Li, JG Van Vranken… - Nature …, 2023 - nature.com
Defining the cellular response to pharmacological agents is critical for understanding the
mechanism of action of small molecule perturbagens. Here, we developed a 96-well-plate …

The midnolin-proteasome pathway catches proteins for ubiquitination-independent degradation

X Gu, C Nardone, N Kamitaki, A Mao, SJ Elledge… - Science, 2023 - science.org
Cells use ubiquitin to mark proteins for proteasomal degradation. Although the proteasome
also eliminates proteins that are not ubiquitinated, how this occurs mechanistically is …

An efficient KRAB domain for CRISPRi applications in human cells

N Alerasool, D Segal, H Lee, M Taipale - Nature methods, 2020 - nature.com
Clustered regularly interspaced short palindromic repeat interference (CRISPRi), based on
the fusion of inactive Cas9 (dCas9) to the Krüppel-associated box (KRAB) repressor, is a …