Enhancer selectivity in space and time: from enhancer–promoter interactions to promoter activation

JH Yang, AS Hansen - Nature Reviews Molecular Cell Biology, 2024 - nature.com
The primary regulators of metazoan gene expression are enhancers, originally functionally
defined as DNA sequences that can activate transcription at promoters in an orientation …

Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries

LH Chang, S Ghosh, A Papale, JM Luppino… - Nature …, 2023 - nature.com
Abstract Topologically Associating Domains (TADs) separate vertebrate genomes into
insulated regulatory neighborhoods that focus genome-associated processes. TADs are …

[HTML][HTML] Mechanistic drivers of chromatin organization into compartments

HL Harris, MJ Rowley - Current Opinion in Genetics & Development, 2024 - Elsevier
Highlights•Recent work indicates that chromatin compartments can finely segregate
genomic intervals that are 1–2 kb in size.•Evidence both supports and refutes several …

The N-Terminal Part of Drosophila CP190 Is a Platform for Interaction with Multiple Architectural Proteins

A Golovnin, L Melnikova, V Babosha… - International Journal of …, 2023 - mdpi.com
CP190 is a co-factor in many Drosophila architectural proteins, being involved in the
formation of active promoters and insulators. CP190 contains the N-terminal BTB/POZ …

RNA Pol II enters the ring of cohesin-mediated loop extrusion

D Noordermeer - Nature Genetics, 2023 - nature.com
The three-dimensional organization of mammalian chromosomes can regulate transcription.
Whether transcription itself influences genome structure has remained a source of debate …

The MADF-BESS Protein CP60 Is Recruited to Insulators via CP190 and Has Redundant Functions in Drosophila

L Melnikova, V Molodina, V Babosha… - International Journal of …, 2023 - mdpi.com
Drosophila CP190 and CP60 are transcription factors that are associated with centrosomes
during mitosis. CP190 is an essential transcription factor and preferentially binds to …

[HTML][HTML] Cohesin mediated loop extrusion from active enhancers form chromatin jets in C. elegans

J Kim, H Wang, S Ercan - bioRxiv, 2023 - ncbi.nlm.nih.gov
In mammals, cohesin and CTCF organize the 3D genome into topologically associated
domains (TADs) to regulate communication between cis-regulatory elements. However …

[HTML][HTML] Changes in chromatin accessibility and transcriptional landscape induced by HDAC inhibitors in TP53 mutated patient-derived colon cancer organoids

T Gagliano, E Kerschbamer, U Baccarani… - Biomedicine & …, 2024 - Elsevier
Here we present the generation and characterization of patient-derived organoids (PDOs)
from colorectal cancer patients. PDOs derived from two patients with TP53 mutations were …

Regulation of T helper cell differentiation by the interplay between histone modification and chromatin interaction

S Liu, Y Cao, K Cui, G Ren, T Zhao, X Wang, D Wei… - Immunity, 2024 - cell.com
The development and function of the immune system are controlled by temporospatial gene
expression programs, which are regulated by cis-regulatory elements, chromatin structure …

Capturing chromosome conformation in Crenarchaea

E Pilatowski‐Herzing, RY Samson… - Molecular …, 2024 - Wiley Online Library
While there is a considerable body of knowledge regarding the molecular and structural
biology and biochemistry of archaeal information processing machineries, far less is known …