Cited by 1,068Genomics and Chromatin DynamicsChromosomal and Genetic VariationsChromatin Remodeling and Cancer

Exploring the three-dimensional organization of genomes: Interpreting chromatin interaction data

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Dekker, Job, Marti-Renom, Marc A., Mirny, Leonid A.·2013·Nature Reviews Genetics

Abstract

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 standing questions in cell biology. Using newly developed molecular, genomic and computational approaches based on the chromosome conformation capture technology (such as 3C, 4C, 5C and Hi-C), the spatial organization of genomes is being explored at unprecedented resolution. Interpreting the increasingly large chromatin interaction data sets is now posing novel challenges. Here we describe several types of statistical and computational approaches that have recently been developed to analyse chromatin interaction data.

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  1. [97]Fudenberg G Mirny LA Higher-order chromatin structure: bridging physics and biology Current Opinion in Genetics & Development 22 115 124 10.1016/j.gde.2012.01.006 2012 22360992 PMC3697851 · DOI

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Authors
Dekker, J., Marti-Renom, M. A., & Mirny, L. A.
Affiliations
  • University of Massachusetts Chan Medical School (US)
  • Massachusetts Institute of Technology (US)
Corresponding author
Dekker, Job
Venue
Nature Reviews Genetics
Published
2013-05-09
Volume
14
Issue
6
Pages
390-403
ISSN
  • 1471-0056 (ISSN-L)
  • 1471-0064
OpenAlex
W1574083126
Cited by
1,068
References
113
Citations by year
2026: 24 · 2025: 38 · 2024: 65 · 2023: 50 · 2022: 73 · 2021: 79 · 2020: 75 · 2019: 81 · 2018: 107 · 2017: 122 · 2016: 122 · 2015: 121 · 2014: 80 · 2013: 30
FWCI
11.08
Type
journal article
Language
en
Open access
Locations
  • Nature Reviews Genetics (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
  • DSpace@MIT (Massachusetts Institute of Technology) (submittedVersion, cc-by-nc-sa)
  • The Journal of the American Medical Association (JAMA) Network (American Medical Association) (submittedVersion)
  • PMC
Funders
  • W. M. Keck Foundation
  • European Commission (282510)
  • Ministerio de Ciencia e Innovación (BFU2010-19310)
  • National Institutes of Health (HG003143)
  • National Human Genome Research Institute (HG003143, HG003143-06S1, R01HG003143)
  • National Cancer Institute (U54CA143874)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
  • Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
Keywords
3D genome organization, chromatin interactions, chromosome conformation capture, Hi-C, 4Cs, 5C, nuclear organization, gene expression regulation, chromatin accessibility
MeSH terms
Animals, Chromatin, Chromosome Mapping, Chromosomes, Human, Epistasis, Genetic, Humans, Models, Genetic, Nucleic Acid Conformation, Genome, Human

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