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

Jim R Hughes; Karen M Lower; Ian Dunham; Stephen Taylor; Marco De Gobbi; Jacqueline A Sloane-Stanley; Simon McGowan; Jiannis Ragoussis; Douglas Vernimmen; Richard J Gibbons; Douglas R Higgs

doi:10.1098/rstb.2012.0361

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

Jim R Hughes
, Karen M Lower
, Ian Dunham
, Stephen Taylor
, Marco De Gobbi
, Jacqueline A Sloane-Stanley
, Simon McGowan
, Jiannis Ragoussis
, Douglas Vernimmen
, Richard J Gibbons
, Douglas R Higgs

Royal (Dick) School of Veterinary Studies

Research output: Contribution to journal › Article › peer-review

Abstract

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.

Original language	English
Article number	20120361
Journal	Philosophical Transactions of the Royal Society B: Biological Sciences
Volume	368
Issue number	1620
DOIs	https://doi.org/10.1098/rstb.2012.0361
Publication status	Published - 2013

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10.1098/rstb.2012.0361

http://rstb.royalsocietypublishing.org/content/368/1620/20120361

Royal Society. Regulation from a distance: long-range control of gene expression in development and disease
Vernimmen, D. (Participant)
2 Oct 2012 → 23 Oct 2020
Activity: Participating in or organising an event types › Participation in conference

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Hughes, J. R., Lower, K. M., Dunham, I., Taylor, S., De Gobbi, M., Sloane-Stanley, J. A., McGowan, S., Ragoussis, J., Vernimmen, D., Gibbons, R. J., & Higgs, D. R. (2013). High-resolution analysis of cis-acting regulatory networks at the α-globin locus. Philosophical Transactions of the Royal Society B: Biological Sciences, 368(1620), Article 20120361. https://doi.org/10.1098/rstb.2012.0361

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title = "High-resolution analysis of cis-acting regulatory networks at the α-globin locus",

abstract = "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.",

author = "Hughes, \{Jim R\} and Lower, \{Karen M\} and Ian Dunham and Stephen Taylor and \{De Gobbi\}, Marco and Sloane-Stanley, \{Jacqueline A\} and Simon McGowan and Jiannis Ragoussis and Douglas Vernimmen and Gibbons, \{Richard J\} and Higgs, \{Douglas R\}",

year = "2013",

doi = "10.1098/rstb.2012.0361",

language = "English",

volume = "368",

journal = "Philosophical Transactions of the Royal Society B: Biological Sciences",

issn = "1471-2970",

publisher = "Royal Society Publishing",

number = "1620",

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Hughes, JR, Lower, KM, Dunham, I, Taylor, S, De Gobbi, M, Sloane-Stanley, JA, McGowan, S, Ragoussis, J, Vernimmen, D, Gibbons, RJ & Higgs, DR 2013, 'High-resolution analysis of cis-acting regulatory networks at the α-globin locus', Philosophical Transactions of the Royal Society B: Biological Sciences, vol. 368, no. 1620, 20120361. https://doi.org/10.1098/rstb.2012.0361

TY - JOUR

T1 - High-resolution analysis of cis-acting regulatory networks at the α-globin locus

AU - Hughes, Jim R

AU - Lower, Karen M

AU - Dunham, Ian

AU - Taylor, Stephen

AU - De Gobbi, Marco

AU - Sloane-Stanley, Jacqueline A

AU - McGowan, Simon

AU - Ragoussis, Jiannis

AU - Vernimmen, Douglas

AU - Gibbons, Richard J

AU - Higgs, Douglas R

PY - 2013

Y1 - 2013

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AB - 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.

U2 - 10.1098/rstb.2012.0361

DO - 10.1098/rstb.2012.0361

M3 - Article

C2 - 23650635

SN - 1471-2970

VL - 368

JO - Philosophical Transactions of the Royal Society B: Biological Sciences

JF - Philosophical Transactions of the Royal Society B: Biological Sciences

IS - 1620

M1 - 20120361

ER -

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

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Royal Society. Regulation from a distance: long-range control of gene expression in development and disease

Cite this