[HTML][HTML] Long non-coding RNAs: definitions, functions, challenges and recommendations

JS Mattick, PP Amaral, P Carninci… - … reviews Molecular cell …, 2023 - nature.com
Genes specifying long non-coding RNAs (lncRNAs) occupy a large fraction of the genomes
of complex organisms. The term 'lncRNAs' encompasses RNA polymerase I (Pol I), Pol II …

[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] Functional partitioning of transcriptional regulators by patterned charge blocks

H Lyons, RT Veettil, P Pradhan, C Fornero… - Cell, 2023 - cell.com
Components of transcriptional machinery are selectively partitioned into specific
condensates, often mediated by protein disorder, yet we know little about how this specificity …

RNA polymerase II dynamics shape enhancer–promoter interactions

G Barshad, JJ Lewis, AG Chivu, A Abuhashem… - Nature …, 2023 - nature.com
How enhancers control target gene expression over long genomic distances remains an
important unsolved problem. Here we investigated enhancer–promoter communication by …

[HTML][HTML] RNA-mediated feedback control of transcriptional condensates

JE Henninger, O Oksuz, K Shrinivas, I Sagi, G LeRoy… - Cell, 2021 - cell.com
Regulation of biological processes typically incorporates mechanisms that initiate and
terminate the process and, where understood, these mechanisms often involve feedback …

Learning the chemical grammar of biomolecular condensates

HR Kilgore, RA Young - Nature chemical biology, 2022 - nature.com
Biomolecular condensates compartmentalize and regulate assemblies of biomolecules
engaged in vital physiological processes in cells. Specific proteins and nucleic acids …

[HTML][HTML] Mechanisms of enhancer action: the known and the unknown

A Panigrahi, BW O'Malley - Genome biology, 2021 - Springer
Differential gene expression mechanisms ensure cellular differentiation and plasticity to
shape ontogenetic and phylogenetic diversity of cell types. A key regulator of differential …

Advances in targeting 'undruggable'transcription factors with small molecules

MJ Henley, AN Koehler - Nature Reviews Drug Discovery, 2021 - nature.com
Transcription factors (TFs) represent key biological players in diseases including cancer,
autoimmunity, diabetes and cardiovascular disease. However, outside nuclear receptors …

Biomolecular condensates in the nucleus

BR Sabari, A Dall'Agnese, RA Young - Trends in biochemical sciences, 2020 - cell.com
Nuclear processes such as DNA replication, transcription, and RNA processing each
depend on the concerted action of many different protein and RNA molecules. How …

Regulation of the RNA polymerase II pre-initiation complex by its associated coactivators

S Malik, RG Roeder - Nature Reviews Genetics, 2023 - nature.com
Abstract The RNA polymerase II (Pol II) pre-initiation complex (PIC) is a critical node in
eukaryotic transcription regulation, and its formation is the major rate-limiting step in …