[HTML][HTML] Deciphering the multi-scale, quantitative cis-regulatory code

S Kim, J Wysocka - Molecular cell, 2023 - cell.com
Uncovering the cis-regulatory code that governs when and how much each gene is
transcribed in a given genome and cellular state remains a central goal of biology. Here, we …

[HTML][HTML] 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 …

[HTML][HTML] Transcription factors interact with RNA to regulate genes

O Oksuz, JE Henninger, R Warneford-Thomson… - Molecular cell, 2023 - cell.com
Transcription factors (TFs) orchestrate the gene expression programs that define each cell's
identity. The canonical TF accomplishes this with two domains, one that binds specific DNA …

Large-scale mapping and mutagenesis of human transcriptional effector domains

N DelRosso, J Tycko, P Suzuki, C Andrews, Aradhana… - Nature, 2023 - nature.com
Human gene expression is regulated by more than 2,000 transcription factors and chromatin
regulators,. Effector domains within these proteins can activate or repress transcription …

Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities

S Müller-Dott, E Tsirvouli, M Vazquez… - Nucleic acids …, 2023 - academic.oup.com
Gene regulation plays a critical role in the cellular processes that underlie human health and
disease. The regulatory relationship between transcription factors (TFs), key regulators of …

[HTML][HTML] Transcription activation is enhanced by multivalent interactions independent of phase separation

J Trojanowski, L Frank, A Rademacher, N Mücke… - Molecular cell, 2022 - cell.com
Transcription factors (TFs) consist of a DNA-binding domain and an activation domain (AD)
that are frequently considered to be independent and exchangeable modules. However …

Multifunctional intrinsically disordered regions in transcription factors

M Már, K Nitsenko… - Chemistry–A European …, 2023 - Wiley Online Library
Eukaryotic transcription factors (TFs) are the final integrators of a complex molecular
feedback mechanism that interfaces with the genome, consolidating information for …

[HTML][HTML] Readout of histone methylation by Trim24 locally restricts chromatin opening by p53

L Isbel, M Iskar, S Durdu, J Weiss, RS Grand… - Nature Structural & …, 2023 - nature.com
The genomic binding sites of the transcription factor (TF) and tumor suppressor p53 are
unusually diverse with regard to their chromatin features, including histone modifications …

Transcription factors perform a 2-step search of the nucleus

MV Staller - Genetics, 2022 - academic.oup.com
Transcription factors regulate gene expression by binding to regulatory DNA and recruiting
regulatory protein complexes. The DNA-binding and protein-binding functions of …

High-throughput functional characterization of combinations of transcriptional activators and repressors

AX Mukund, J Tycko, SJ Allen, SA Robinson… - Cell Systems, 2023 - cell.com
Despite growing knowledge of the functions of individual human transcriptional effector
domains, much less is understood about how multiple effector domains within the same …