[HTML][HTML] Spatial and temporal organization of the genome: Current state and future aims of the 4D nucleome project
The four-dimensional nucleome (4DN) consortium studies the architecture of the genome
and the nucleus in space and time. We summarize progress by the consortium and highlight …
and the nucleus in space and time. We summarize progress by the consortium and highlight …
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 …
Computational methods for analysing multiscale 3D genome organization
Recent progress in whole-genome mapping and imaging technologies has enabled the
characterization of the spatial organization and folding of the genome in the nucleus. In …
characterization of the spatial organization and folding of the genome in the nucleus. In …
[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 …
Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome
Chromosomes in the eukaryotic nucleus are highly compacted. However, for many
functional processes, including transcription initiation, the pairwise motion of distal …
functional processes, including transcription initiation, the pairwise motion of distal …
Chromatin accessibility: methods, mechanisms, and biological insights
AR Mansisidor, VI Risca - Nucleus, 2022 - Taylor & Francis
Access to DNA is a prerequisite to the execution of essential cellular processes that include
transcription, replication, chromosomal segregation, and DNA repair. How the proteins that …
transcription, replication, chromosomal segregation, and DNA repair. How the proteins that …
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 …
Genome modeling: from chromatin fibers to genes
The intricacies of the 3D hierarchical organization of the genome have been approached by
many creative modeling studies. The specific model/simulation technique combination …
many creative modeling studies. The specific model/simulation technique combination …
[HTML][HTML] Beyond SAHF: An integrative view of chromatin compartmentalization during senescence
Cellular senescence, a persistent form of cell cycle arrest, has been linked to the formation
of heterochromatic foci, accompanied by additional concentric epigenetic layers. However …
of heterochromatic foci, accompanied by additional concentric epigenetic layers. However …
Transcriptional condensates: a blessing or a curse for gene regulation?
M Stortz, DM Presman, V Levi - Communications Biology, 2024 - nature.com
Whether phase-separation is involved in the organization of the transcriptional machinery
and if it aids or inhibits the transcriptional process is a matter of intense debate. In this Mini …
and if it aids or inhibits the transcriptional process is a matter of intense debate. In this Mini …