High-resolution analysis of cis-acting regulatory networks at the α-globin locus

We have combined the circular chromosome conformation capture protocol with high-throughput, genome-wide sequence analysis to characterize the cis-acting regulatory network at a single locus. In contrast to methods which identify large interacting regions (10–1000 kb), the 4C approach provides a com...

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Bibliographic Details
Published in:Philosophical transactions of the Royal Society of London. Series B. Biological sciences 2013-06, Vol.368 (1620), p.20120361-20120361
Main Authors: Hughes, Jim R., Lower, Karen M., Dunham, Ian, Taylor, Stephen, De Gobbi, Marco, Sloane-Stanley, Jacqueline A., McGowan, Simon, Ragoussis, Jiannis, Vernimmen, Douglas, Gibbons, Richard J., Higgs, Douglas R.
Format: Article
Language:English
Subjects:
alpha-Globins - genetics
alpha-Globins - metabolism
beta-Globins - metabolism
CCCTC-Binding Factor
Chromatin Assembly and Disassembly
Chromatin Conformation Capture
Chromosomes, Human, Pair 16 - genetics
Chromosomes, Human, Pair 16 - metabolism
cis-regulatory elements
Gene Regulatory Networks
Genetic Loci
Genome, Human
Humans
Open Reading Frames
Promoter Regions, Genetic
Protein Interaction Mapping
Regulatory Elements
Regulatory Sequences, Nucleic Acid
Repressor Proteins - genetics
Α-Globin Locus
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Summary:We have combined the circular chromosome conformation capture protocol with high-throughput, genome-wide sequence analysis to characterize the cis-acting regulatory network at a single locus. In contrast to methods which identify large interacting regions (10–1000 kb), the 4C approach provides a comprehensive, high-resolution analysis of a specific locus with the aim of defining, in detail, the cis-regulatory elements controlling a single gene or gene cluster. Using the human α-globin locus as a model, we detected all known local and long-range interactions with this gene cluster. In addition, we identified two interactions with genes located 300 kb (NME4) and 625 kb (FAM173a) from the α-globin cluster.
ISSN:0962-8436
1471-2970
DOI:10.1098/rstb.2012.0361