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 …
Chromosome organization in bacteria: mechanistic insights into genome structure and function
Bacterial chromosomes are folded to compact DNA and facilitate cellular processes.
Studying model bacteria has revealed aspects of chromosome folding that are applicable to …
Studying model bacteria has revealed aspects of chromosome folding that are applicable to …
Early metazoan cell type diversity and the evolution of multicellular gene regulation
A Sebé-Pedrós, E Chomsky, K Pang… - Nature ecology & …, 2018 - nature.com
A hallmark of metazoan evolution is the emergence of genomic mechanisms that implement
cell-type-specific functions. However, the evolution of metazoan cell types and their …
cell-type-specific functions. However, the evolution of metazoan cell types and their …
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 …
Decoding gene regulation in the fly brain
The Drosophila brain is a frequently used model in neuroscience. Single-cell transcriptome
analysis,,,,–, three-dimensional morphological classification and electron microscopy …
analysis,,,,–, three-dimensional morphological classification and electron microscopy …
[HTML][HTML] The 3D architecture of the pepper genome and its relationship to function and evolution
The organization of chromatin into self-interacting domains is universal among eukaryotic
genomes, though how and why they form varies considerably. Here we report a …
genomes, though how and why they form varies considerably. Here we report a …
[HTML][HTML] CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions
Vertebrate genomes are partitioned into contact domains defined by enhanced internal
contact frequency and formed by two principal mechanisms: compartmentalization of …
contact frequency and formed by two principal mechanisms: compartmentalization of …
DeepYY1: a deep learning approach to identify YY1-mediated chromatin loops
Abstract The protein Yin Yang 1 (YY1) could form dimers that facilitate the interaction
between active enhancers and promoter-proximal elements. YY1-mediated enhancer …
between active enhancers and promoter-proximal elements. YY1-mediated enhancer …
CTCF: a Swiss-army knife for genome organization and transcription regulation
L Braccioli, E de Wit - Essays in biochemistry, 2019 - portlandpress.com
Orchestrating vertebrate genomes require a complex interplay between the linear
composition of the genome and its 3D organization inside the nucleus. This requires the …
composition of the genome and its 3D organization inside the nucleus. This requires the …
[HTML][HTML] Unraveling the 3D genome architecture in plants: present and future
The eukaryotic genome has a hierarchical three-dimensional (3D) organization with
functional implications for DNA replication, DNA repair, and transcriptional regulation. Over …
functional implications for DNA replication, DNA repair, and transcriptional regulation. Over …