Dynamics of nuclear architecture during early embryonic development and lessons from liveimaging
F Pecori, ME Torres-Padilla - Developmental cell, 2023 - cell.com
Nuclear organization has emerged as a potential key regulator of genome function. During
development, the deployment of transcriptional programs must be tightly coordinated with …
development, the deployment of transcriptional programs must be tightly coordinated with …
3DGenBench: a web-server to benchmark computational models for 3D Genomics
Nucleic Acids Research, 2022 - academic.oup.com
Modeling 3D genome organisation has been booming in the last years thanks to the
availability of experimental datasets of genomic contacts. However, the field is currently …
availability of experimental datasets of genomic contacts. However, the field is currently …
Genome-in-a-box: building a chromosome from the bottom up
A Birnie, C Dekker - ACS nano, 2020 - ACS Publications
Chromosome structure and dynamics are essential for life, as the way that our genomes are
spatially organized within cells is crucial for gene expression, differentiation, and genome …
spatially organized within cells is crucial for gene expression, differentiation, and genome …
[HTML][HTML] Integrative approaches in genome structure analysis
L Boninsegna, A Yildirim, Y Zhan, F Alber - Structure, 2022 - cell.com
New technological advances in integrated imaging, sequencing-based assays, and
computational analysis have revolutionized our view of genomes in terms of their structure …
computational analysis have revolutionized our view of genomes in terms of their structure …
Large-scale data-driven and physics-based models offer insights into the relationships among the structures, dynamics, and functions of chromosomes
The organized three-dimensional chromosome architecture in the cell nucleus provides
scaffolding for precise regulation of gene expression. When the cell changes its identity in …
scaffolding for precise regulation of gene expression. When the cell changes its identity in …
Fundamental insights into the correlation between chromosome configuration and transcription
Eukaryotic chromosomes exhibit a hierarchical organization that spans a spectrum of length
scales, ranging from sub-regions known as loops, which typically comprise hundreds of …
scales, ranging from sub-regions known as loops, which typically comprise hundreds of …
Polymer models are a versatile tool to study chromatin 3D organization
The development of new experimental technologies is opening the way to a deeper
investigation of the three-dimensional organization of chromosomes inside the cell nucleus …
investigation of the three-dimensional organization of chromosomes inside the cell nucleus …
[HTML][HTML] The physics of DNA folding: polymer models and phase-separation
Within cell nuclei, several biophysical processes occur in order to allow the correct activities
of the genome such as transcription and gene regulation. To quantitatively investigate such …
of the genome such as transcription and gene regulation. To quantitatively investigate such …
[HTML][HTML] Unveiling the Machinery behind Chromosome Folding by Polymer Physics Modeling
Understanding the mechanisms underlying the complex 3D architecture of mammalian
genomes poses, at a more fundamental level, the problem of how two or multiple genomic …
genomes poses, at a more fundamental level, the problem of how two or multiple genomic …
Physical mechanisms of chromatin spatial organization
In higher eukaryotes, chromosomes have a complex three‐dimensional (3D) conformation
in the cell nucleus serving vital functional purposes, yet their folding principles remain poorly …
in the cell nucleus serving vital functional purposes, yet their folding principles remain poorly …