Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci.
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Date
2015-02-19Author
Jäger, R
Migliorini, G
Henrion, M
Kandaswamy, R
Speedy, HE
Heindl, A
Whiffin, N
Carnicer, MJ
Broome, L
Dryden, N
Nagano, T
Schoenfelder, S
Enge, M
Yuan, Y
Taipale, J
Fraser, P
Fletcher, O
Houlston, RS
Type
Journal Article
Metadata
Show full item recordAbstract
Multiple regulatory elements distant from their targets on the linear genome can influence the expression of a single gene through chromatin looping. Chromosome conformation capture implemented in Hi-C allows for genome-wide agnostic characterization of chromatin contacts. However, detection of functional enhancer-promoter interactions is precluded by its effective resolution that is determined by both restriction fragmentation and sensitivity of the experiment. Here we develop a capture Hi-C (cHi-C) approach to allow an agnostic characterization of these physical interactions on a genome-wide scale. Single-nucleotide polymorphisms associated with complex diseases often reside within regulatory elements and exert effects through long-range regulation of gene expression. Applying this cHi-C approach to 14 colorectal cancer risk loci allows us to identify key long-range chromatin interactions in cis and trans involving these loci.
Subject
Cell Line, Tumor
Chromosomes, Human, Pair 8
Chromatin
Humans
Colorectal Neoplasms
Genetic Predisposition to Disease
In Situ Hybridization, Fluorescence
Risk Factors
Base Pairing
Statistics as Topic
Genetic Loci
Molecular Sequence Annotation
Nucleotide Motifs
Research team
Functional Genetic Epidemiology
Cancer Genomics
Computational Pathology & Integrated Genomics
Gene Function
Molecular & Population Genetics
Language
eng
Date accepted
2014-12-30
License start date
2015-02-19
Citation
Nature communications, 2015, 6 pp. 6178 - ?
Publisher
NATURE PORTFOLIO