title: Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci.
abstract: 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.
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Roland
authors.initials: R
authors.lastname: Jäger
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Gabriele
authors.initials: G
authors.lastname: Migliorini
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Marc
authors.initials: M
authors.lastname: Henrion
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Radhika
authors.initials: R
authors.lastname: Kandaswamy
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Helen E
authors.initials: HE
authors.lastname: Speedy
authors.affiliation: Division of Molecular Pathology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Andreas
authors.initials: A
authors.lastname: Heindl
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Nicola
authors.initials: N
authors.lastname: Whiffin
authors.affiliation: Division of Molecular Pathology, Haemato-Oncology Research Unit, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Maria J
authors.initials: MJ
authors.lastname: Carnicer
authors.affiliation: Breakthrough Breast Cancer Research Centre, The Institute of Cancer Research, London SW3 6JB, UK.
authors.forename: Laura
authors.initials: L
authors.lastname: Broome
authors.affiliation: Breakthrough Breast Cancer Research Centre, The Institute of Cancer Research, London SW3 6JB, UK.
authors.forename: Nicola
authors.initials: N
authors.lastname: Dryden
authors.affiliation: Nuclear Dynamics Programme, The Babraham Institute, Cambridge CB22 3AT, UK.
authors.forename: Takashi
authors.initials: T
authors.lastname: Nagano
authors.affiliation: Nuclear Dynamics Programme, The Babraham Institute, Cambridge CB22 3AT, UK.
authors.forename: Stefan
authors.initials: S
authors.lastname: Schoenfelder
authors.affiliation: Department of Biosciences and Nutrition, Science for Life Laboratory, Karolinska Institutet, 14 183, Huddinge, Sweden.
authors.forename: Martin
authors.initials: M
authors.lastname: Enge
authors.affiliation: Division of Molecular Pathology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Yinyin
authors.initials: Y
authors.lastname: Yuan
authors.affiliation: Department of Biosciences and Nutrition, Science for Life Laboratory, Karolinska Institutet, 14 183, Huddinge, Sweden.
authors.forename: Jussi
authors.initials: J
authors.lastname: Taipale
authors.affiliation: Nuclear Dynamics Programme, The Babraham Institute, Cambridge CB22 3AT, UK.
authors.forename: Peter
authors.initials: P
authors.lastname: Fraser
authors.affiliation: Breakthrough Breast Cancer Research Centre, The Institute of Cancer Research, London SW3 6JB, UK.
authors.forename: Olivia
authors.initials: O
authors.lastname: Fletcher
authors.affiliation: Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, UK.
authors.forename: Richard S
authors.initials: RS
authors.lastname: Houlston
mesh_terms: D020029:Base Pairing / Q000235:genetics; D045744:Cell Line, Tumor; D002843:Chromatin / Q000378:metabolism*; D002898:Chromosomes, Human, Pair 8 / Q000235:genetics; D015179:Colorectal Neoplasms / Q000235:genetics*; D056426:Genetic Loci; D020022:Genetic Predisposition to Disease; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D058977:Molecular Sequence Annotation; D059372:Nucleotide Motifs / Q000235:genetics; D012307:Risk Factors; D013223:Statistics as Topic
chemical_list: D002843:Chromatin