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

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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

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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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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
ORCID: Dekker, Job
Mirny, Leonid A.
Venue: Nature Reviews Genetics
Publisher: Springer Science and Business Media LLC
Published: 2013-05-09
Volume: 14
Issue: 6
Pages: 390-403
ISSN: 1471-0056 (ISSN-L)
1471-0064
DOI: 10.1038/nrg3454
PMC: PMC3874835
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: green
europepmc.org
Licence: www.springer.com/tdm (tdm)
www.springer.com/tdm (vor)
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 › Biochemistry, Genetics and Molecular Biology › Genetics › 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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Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data

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