The scales, mechanisms, and dynamics of the genome architecture
L Lizana, YB Schwartz - Science Advances, 2024 - science.org
Even when split into several chromosomes, DNA molecules that make up our genome are
too long to fit into the cell nuclei unless massively folded. Such folding must accommodate …
too long to fit into the cell nuclei unless massively folded. Such folding must accommodate …
Chromosome-level organization of the regulatory genome in the Drosophila nervous system
Previous studies have identified topologically associating domains (TADs) as basic units of
genome organization. We present evidence of a previously unreported level of genome …
genome organization. We present evidence of a previously unreported level of genome …
Technological advances in probing 4D genome organization
J Soroczynski, VI Risca - Current Opinion in Cell Biology, 2023 - Elsevier
The last two decades of work on chromosome conformation in eukaryotic nuclei have
revealed a complex and highly regulated hierarchy of architectural features, from self …
revealed a complex and highly regulated hierarchy of architectural features, from self …
Boundary stacking interactions enable cross-TAD enhancer–promoter communication during limb development
TC Hung, DM Kingsley, AN Boettiger - Nature Genetics, 2024 - nature.com
Although promoters and their enhancers are frequently contained within a topologically
associating domain (TAD), some developmentally important genes have their promoter and …
associating domain (TAD), some developmentally important genes have their promoter and …
Polycomb repression of Hox genes involves spatial feedback but not domain compaction or phase transition
SE Murphy, AN Boettiger - Nature genetics, 2024 - nature.com
Polycomb group proteins have a critical role in silencing transcription during development. It
is commonly proposed that Polycomb-dependent changes in genome folding, which …
is commonly proposed that Polycomb-dependent changes in genome folding, which …
Crumpled polymer with loops recapitulates key features of chromosome organization
Chromosomes are exceedingly long topologically constrained polymers compacted in a cell
nucleus. We recently suggested that chromosomes are organized into loops by an active …
nucleus. We recently suggested that chromosomes are organized into loops by an active …
Multi-omic analysis of human kidney tissue identified medulla-specific gene expression patterns
S Haug, S Muthusamy, Y Li, G Stewart, X Li… - Kidney International, 2024 - Elsevier
The kidney medulla is a specialized region with important homeostatic functions. It has been
implicated in genetic and developmental disorders along with ischemic and drug-induced …
implicated in genetic and developmental disorders along with ischemic and drug-induced …
RAD21 is the core subunit of the cohesin complex involved in directing genome organization
Y Sun, X Xu, W Zhao, Y Zhang, K Chen, Y Li, X Wang… - Genome Biology, 2023 - Springer
Background The ring-shaped cohesin complex is an important factor for the formation of
chromatin loops and topologically associating domains (TADs) by loop extrusion. However …
chromatin loops and topologically associating domains (TADs) by loop extrusion. However …
What are tethering elements?
X Li, M Levine - Current Opinion in Genetics & Development, 2024 - Elsevier
High-resolution Micro-C maps identified a specialized class of regulatory DNAs termed
'tethering elements'(TEs) in Drosophila. These 300–500-bp elements facilitate specific long …
'tethering elements'(TEs) in Drosophila. These 300–500-bp elements facilitate specific long …
Regulatory landscape of enhancer-mediated transcriptional activation
K Kawasaki, T Fukaya - Trends in Cell Biology, 2024 - cell.com
Enhancers are noncoding regulatory elements that instruct spatial and temporal specificity of
gene transcription in response to a variety of intrinsic and extrinsic signals during …
gene transcription in response to a variety of intrinsic and extrinsic signals during …