title: Robust 4C-seq data analysis to screen for regulatory DNA interactions.
abstract: Regulatory DNA elements can control the expression of distant genes via physical interactions. Here we present a cost-effective methodology and computational analysis pipeline for robust characterization of the physical organization around selected promoters and other functional elements using chromosome conformation capture combined with high-throughput sequencing (4C-seq). Our approach can be multiplexed and routinely integrated with other functional genomics assays to facilitate physical characterization of gene regulation.
authors.affiliation: Hubrecht Institute, Royal Netherlands Academy of Arts and Sciences (KNAW), Utrecht, The Netherlands.
authors.forename: Harmen J G
authors.initials: HJ
authors.lastname: van de Werken
authors.forename: Gilad
authors.initials: G
authors.lastname: Landan
authors.forename: Sjoerd J B
authors.initials: SJ
authors.lastname: Holwerda
authors.forename: Michael
authors.initials: M
authors.lastname: Hoichman
authors.forename: Petra
authors.initials: P
authors.lastname: Klous
authors.forename: Ran
authors.initials: R
authors.lastname: Chachik
authors.forename: Erik
authors.initials: E
authors.lastname: Splinter
authors.forename: Christian
authors.initials: C
authors.lastname: Valdes-Quezada
authors.forename: Yuva
authors.initials: Y
authors.lastname: Oz
authors.forename: Britta A M
authors.initials: BA
authors.lastname: Bouwman
authors.forename: Marjon J A M
authors.initials: MJ
authors.lastname: Verstegen
authors.forename: Elzo
authors.initials: E
authors.lastname: de Wit
authors.forename: Amos
authors.initials: A
authors.lastname: Tanay
authors.forename: Wouter
authors.initials: W
authors.lastname: de Laat
mesh_terms: D004247:DNA / Q000737:chemistry*; D005786:Gene Expression Regulation; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D019901:Locus Control Region; D016133:Polymerase Chain Reaction; D011401:Promoter Regions, Genetic
chemical_list: D004247:DNA