3D enhancer-promoter interactions and multi-connected hubs: Organizational principles and functional roles
CM Uyehara, E Apostolou - Cell reports, 2023 - cell.com
The spatiotemporal control of gene expression is dependent on the activity of cis-acting
regulatory sequences, called enhancers, which regulate target genes over variable genomic …
regulatory sequences, called enhancers, which regulate target genes over variable genomic …
Transcription regulation by long non-coding RNAs: mechanisms and disease relevance
J Ferrer, N Dimitrova - Nature Reviews Molecular Cell Biology, 2024 - nature.com
Long non-coding RNAs (lncRNAs) outnumber protein-coding transcripts, but their functions
remain largely unknown. In this Review, we discuss the emerging roles of lncRNAs in the …
remain largely unknown. In this Review, we discuss the emerging roles of lncRNAs in the …
Enhancer–promoter contact formation requires RNAPII and antagonizes loop extrusion
Homotypic chromatin interactions and loop extrusion are thought to be the two main drivers
of mammalian chromosome folding. Here we tested the role of RNA polymerase II (RNAPII) …
of mammalian chromosome folding. Here we tested the role of RNA polymerase II (RNAPII) …
Looping the genome with SMC complexes
SMC (structural maintenance of chromosomes) protein complexes are an evolutionarily
conserved family of motor proteins that hold sister chromatids together and fold genomes …
conserved family of motor proteins that hold sister chromatids together and fold genomes …
New insights into genome folding by loop extrusion from inducible degron technologies
Chromatin folds into dynamic loops that often span hundreds of kilobases and physically
wire distant loci together for gene regulation. These loops are continuously created …
wire distant loci together for gene regulation. These loops are continuously created …
YY1-controlled regulatory connectivity and transcription are influenced by the cell cycle
Few transcription factors have been examined for their direct roles in physically connecting
enhancers and promoters. Here acute degradation of Yin Yang 1 (YY1) in erythroid cells …
enhancers and promoters. Here acute degradation of Yin Yang 1 (YY1) in erythroid cells …
Transcription-induced domains form the elementary constraining building blocks of bacterial chromosomes
A Bignaud, C Cockram, C Borde, J Groseille… - Nature Structural & …, 2024 - nature.com
Transcription generates local topological and mechanical constraints on the DNA fiber,
leading to the generation of supercoiled chromosome domains in bacteria. However, the …
leading to the generation of supercoiled chromosome domains in bacteria. However, the …
CTCF and R-loops are boundaries of cohesin-mediated DNA looping
Cohesin and CCCTC-binding factor (CTCF) are key regulatory proteins of three-dimensional
(3D) genome organization. Cohesin extrudes DNA loops that are anchored by CTCF in a …
(3D) genome organization. Cohesin extrudes DNA loops that are anchored by CTCF in a …
[HTML][HTML] The role of loop extrusion in enhancer-mediated gene activation
MA Karpinska, AM Oudelaar - Current Opinion in Genetics & Development, 2023 - Elsevier
Gene expression patterns in complex multicellular organisms are regulated by enhancers,
which communicate with their target gene promoters in three-dimensional (3D) chromatin …
which communicate with their target gene promoters in three-dimensional (3D) chromatin …
[HTML][HTML] Chromatin jets define the properties of cohesin-driven in vivo loop extrusion
Complex genomes show intricate organization in three-dimensional (3D) nuclear space.
Current models posit that cohesin extrudes loops to form self-interacting domains delimited …
Current models posit that cohesin extrudes loops to form self-interacting domains delimited …