Multiplexed imaging of nucleome architectures in single cells of mammalian tissue

M Liu, Y Lu, B Yang, Y Chen, JSD Radda, M Hu… - Nature …, 2020 - nature.com
The three-dimensional architecture of the genome affects genomic functions. Multiple
genome architectures at different length scales, including chromatin loops, domains …

Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture–on-chip (4C)

M Simonis, P Klous, E Splinter, Y Moshkin… - Nature …, 2006 - nature.com
The spatial organization of DNA in the cell nucleus is an emerging key contributor to
genomic function,,,,,,,,,,,. We developed 4C technology (chromosome conformation capture …

Understanding the regulatory and transcriptional complexity of the genome through structure

TR Mercer, JS Mattick - Genome research, 2013 - genome.cshlp.org
An expansive functionality and complexity has been ascribed to the majority of the human
genome that was unanticipated at the outset of the draft sequence and assembly a decade …

Computational methods for analysing multiscale 3D genome organization

Y Zhang, L Boninsegna, M Yang, T Misteli… - Nature Reviews …, 2024 - nature.com
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 …

Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: from fixation to computation

E Splinter, E de Wit, HJG van de Werken, P Klous… - Methods, 2012 - Elsevier
Chromosome Conformation Capture (3C) and 3C-based technologies are constantly
evolving in order to probe nuclear organization with higher depth and resolution. One such …

Genomics tools for unraveling chromosome architecture

B Van Steensel, J Dekker - Nature biotechnology, 2010 - nature.com
The spatial organization of chromosomes inside the cell nucleus is still poorly understood.
This organization is guided by intra-and interchromosomal contacts and by interactions of …

Two ways to fold the genome during the cell cycle: insights obtained with chromosome conformation capture

J Dekker - Epigenetics & chromatin, 2014 - Springer
Genetic and epigenetic inheritance through mitosis is critical for dividing cells to maintain
their state. This process occurs in the context of large-scale re-organization of chromosome …

Principles of 3D compartmentalization of the human genome

MH Nichols, VG Corces - Cell reports, 2021 - cell.com
Chromatin is organized in the nucleus via CTCF loops and compartmental domains. Here,
we compare different cell types to identify distinct paradigms of compartmental domain …

Closing the loop: 3C versus DNA FISH

L Giorgetti, E Heard - Genome biology, 2016 - Springer
Abstract Chromosome conformation capture (3C)-based techniques have revolutionized the
field of nuclear organization, partly replacing DNA FISH as the method of choice for studying …

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 …