Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler
While nuclear compartmentalization is an essential feature of three-dimensional genome
organization, no genomic method exists for measuring chromosome distances to defined …
organization, no genomic method exists for measuring chromosome distances to defined …
SPIN reveals genome-wide landscape of nuclear compartmentalization
We report SPIN, an integrative computational method to reveal genome-wide intranuclear
chromosome positioning and nuclear compartmentalization relative to multiple nuclear …
chromosome positioning and nuclear compartmentalization relative to multiple nuclear …
TSA-seq reveals a largely conserved genome organization relative to nuclear speckles with small position changes tightly correlated with gene expression changes
TSA-seq mapping suggests that gene distance to nuclear speckles is more deterministic and
predictive of gene expression levels than gene radial positioning. Gene expression …
predictive of gene expression levels than gene radial positioning. Gene expression …
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 …
Genome-wide mapping and analysis of chromosome architecture
Chromosomes of eukaryotes adopt highly dynamic and complex hierarchical structures in
the nucleus. The three-dimensional (3D) organization of chromosomes profoundly affects …
the nucleus. The three-dimensional (3D) organization of chromosomes profoundly affects …
Integrative genome modeling platform reveals essentiality of rare contact events in 3D genome organizations
A multitude of sequencing-based and microscopy technologies provide the means to
unravel the relationship between the three-dimensional organization of genomes and key …
unravel the relationship between the three-dimensional organization of genomes and key …
[HTML][HTML] Genome-wide maps of nuclear lamina interactions in single human cells
Mammalian interphase chromosomes interact with the nuclear lamina (NL) through
hundreds of large lamina-associated domains (LADs). We report a method to map NL …
hundreds of large lamina-associated domains (LADs). We report a method to map NL …
Understanding 3D genome organization by multidisciplinary methods
I Jerkovic, G Cavalli - Nature Reviews Molecular Cell Biology, 2021 - nature.com
Understanding how chromatin is folded in the nucleus is fundamental to understanding its
function. Although 3D genome organization has been historically difficult to study owing to a …
function. Although 3D genome organization has been historically difficult to study owing to a …
GPSeq reveals the radial organization of chromatin in the cell nucleus
G Girelli, J Custodio, T Kallas, F Agostini… - Nature …, 2020 - nature.com
With the exception of lamina-associated domains, the radial organization of chromatin in
mammalian cells remains largely unexplored. Here we describe genomic loci positioning by …
mammalian cells remains largely unexplored. Here we describe genomic loci positioning by …
Bayesian inference of spatial organizations of chromosomes
Knowledge of spatial chromosomal organizations is critical for the study of transcriptional
regulation and other nuclear processes in the cell. Recently, chromosome conformation …
regulation and other nuclear processes in the cell. Recently, chromosome conformation …