Principles of genome folding into topologically associating domains
Understanding the mechanisms that underlie chromosome folding within cell nuclei is
essential to determine the relationship between genome structure and function. The recent …
essential to determine the relationship between genome structure and function. The recent …
Control of DNA replication timing in the 3D genome
The 3D organization of mammalian chromatin was described more than 30 years ago by
visualizing sites of DNA synthesis at different times during the S phase of the cell cycle …
visualizing sites of DNA synthesis at different times during the S phase of the cell cycle …
Predicting 3D genome folding from DNA sequence with Akita
In interphase, the human genome sequence folds in three dimensions into a rich variety of
locus-specific contact patterns. Cohesin and CTCF (CCCTC-binding factor) are key …
locus-specific contact patterns. Cohesin and CTCF (CCCTC-binding factor) are key …
Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression
Y Ghavi-Helm, A Jankowski, S Meiers, RR Viales… - Nature …, 2019 - nature.com
Chromatin topology is intricately linked to gene expression, yet its functional requirement
remains unclear. Here, we comprehensively assessed the interplay between genome …
remains unclear. Here, we comprehensively assessed the interplay between genome …
Topological structures and syntenic conservation in sea anemone genomes
There is currently little information about the evolution of gene clusters, genome
architectures and karyotypes in early branching animals. Slowly evolving anthozoan …
architectures and karyotypes in early branching animals. Slowly evolving anthozoan …
CTCF shapes chromatin structure and gene expression in health and disease
B Dehingia, M Milewska, M Janowski, A Pękowska - EMBO reports, 2022 - embopress.org
CCCTC‐binding factor (CTCF) is an eleven zinc finger (ZF), multivalent transcriptional
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
Joint profiling of DNA methylation and chromatin architecture in single cells
We report a molecular assay, Methyl-HiC, that can simultaneously capture the chromosome
conformation and DNA methylome in a cell. Methyl-HiC reveals coordinated DNA …
conformation and DNA methylome in a cell. Methyl-HiC reveals coordinated DNA …
Functional dissection of the Sox9–Kcnj2 locus identifies nonessential and instructive roles of TAD architecture
A Despang, R Schöpflin, M Franke, S Ali, I Jerković… - Nature …, 2019 - nature.com
The genome is organized in three-dimensional units called topologically associating
domains (TADs), through a process dependent on the cooperative action of cohesin and the …
domains (TADs), through a process dependent on the cooperative action of cohesin and the …
Multi-feature clustering of CTCF binding creates robustness for loop extrusion blocking and Topologically Associating Domain boundaries
Abstract Topologically Associating Domains (TADs) separate vertebrate genomes into
insulated regulatory neighborhoods that focus genome-associated processes. TADs are …
insulated regulatory neighborhoods that focus genome-associated processes. TADs are …
Emerging evidence of chromosome folding by loop extrusion
Chromosome organization poses a remarkable physical problem with many biological
consequences: How can molecular interactions between proteins at the nanometer scale …
consequences: How can molecular interactions between proteins at the nanometer scale …