Methods for mapping 3D chromosome architecture
R Kempfer, A Pombo - Nature Reviews Genetics, 2020 - nature.com
Determining how chromosomes are positioned and folded within the nucleus is critical to
understanding the role of chromatin topology in gene regulation. Several methods are …
understanding the role of chromatin topology in gene regulation. Several methods are …
The relationship between genome structure and function
AM Oudelaar, DR Higgs - Nature Reviews Genetics, 2021 - nature.com
Precise patterns of gene expression in metazoans are controlled by three classes of
regulatory elements: promoters, enhancers and boundary elements. During differentiation …
regulatory elements: promoters, enhancers and boundary elements. During differentiation …
[HTML][HTML] Higher-order inter-chromosomal hubs shape 3D genome organization in the nucleus
SA Quinodoz, N Ollikainen, B Tabak, A Palla… - Cell, 2018 - cell.com
Eukaryotic genomes are packaged into a 3-dimensional structure in the nucleus. Current
methods for studying genome-wide structure are based on proximity ligation. However, this …
methods for studying genome-wide structure are based on proximity ligation. However, this …
Nuclear speckles: molecular organization, biological function and role in disease
L Galganski, MO Urbanek… - Nucleic acids …, 2017 - academic.oup.com
The nucleoplasm is not homogenous; it consists of many types of nuclear bodies, also
known as nuclear domains or nuclear subcompartments. These self-organizing structures …
known as nuclear domains or nuclear subcompartments. These self-organizing structures …
Phase separation of ligand-activated enhancers licenses cooperative chromosomal enhancer assembly
A crucial feature of differentiated cells is the rapid activation of enhancer-driven
transcriptional programs in response to signals. The potential contributions of …
transcriptional programs in response to signals. The potential contributions of …
[HTML][HTML] HIV-1 replication complexes accumulate in nuclear speckles and integrate into speckle-associated genomic domains
AC Francis, M Marin, PK Singh, V Achuthan… - Nature …, 2020 - nature.com
The early steps of HIV-1 infection, such as uncoating, reverse transcription, nuclear import,
and transport to integration sites are incompletely understood. Here, we imaged nuclear …
and transport to integration sites are incompletely understood. Here, we imaged nuclear …
Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data
How DNA is organized in three dimensions inside the cell nucleus and how this affects the
ways in which cells access, read and interpret genetic information are among the longest …
ways in which cells access, read and interpret genetic information are among the longest …
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
E Lieberman-Aiden, NL Van Berkum, L Williams… - science, 2009 - science.org
We describe Hi-C, a method that probes the three-dimensional architecture of whole
genomes by coupling proximity-based ligation with massively parallel sequencing. We …
genomes by coupling proximity-based ligation with massively parallel sequencing. We …
[HTML][HTML] Genome architecture: domain organization of interphase chromosomes
WA Bickmore, B Van Steensel - Cell, 2013 - cell.com
The architecture of interphase chromosomes is important for the regulation of gene
expression and genome maintenance. Chromosomes are linearly segmented into hundreds …
expression and genome maintenance. Chromosomes are linearly segmented into hundreds …
[HTML][HTML] Mapping human epigenomes
CM Rivera, B Ren - Cell, 2013 - cell.com
As the second dimension to the genome, the epigenome contains key information specific to
every type of cells. Thousands of human epigenome maps have been produced in recent …
every type of cells. Thousands of human epigenome maps have been produced in recent …