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Hydroxymethylated DNA Immunoprecipitation (hmeDIP)

  • Colm E. Nestor
  • Richard R. Meehan
Part of the Methods in Molecular Biology book series (MIMB, volume 1094)

Abstract

5-hydroxymethylcytosine (5hmC) was recently identified as an abundant epigenetic mark in mammals. Subsequent research has implicated 5hmC in normal mammalian development and disease pathogenesis in humans. Many of the techniques commonly used to assay for canonical 5-methylcytosine (5mC) cannot distinguish between 5hmC and 5mC. The development of antibodies specific to 5hmC has allowed for specific enrichment of DNA fragments containing 5hmC. Hydroxymethylated DNA immunoprecipitation (hmeDIP) has become an invaluable tool for determining both locus-specific and genome-wide profiles of 5hmC in mammalian DNA. Here, we describe the use of hmeDIP to characterize the relative abundance of 5hmC at loci in mammalian DNA.

Key words

DNA Methylation Hydroxymethylation 5-Hydroxymethylcytosine Immunoprecipitation Antibody Sonication 

Notes

Acknowledgements

We thank Dr. James P. Reddington for critical reading of this manuscript and Raffaele Ottaviano for helpful advice. We thank members of the Meehan lab for advice on the development and application of 5hmC protocols. Work in RM’s lab is supported by the Medical Research Council, by the BBSRC, and by the Innovative Medicines Initiative Joint Undertaking (IMI JU) under grant agreement number 115001 (MARCAR project). URL: http://www.imi-marcar.eu/.

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Copyright information

© Springer Science+Business Media, New York 2014

Authors and Affiliations

  • Colm E. Nestor
    • 1
    • 2
  • Richard R. Meehan
    • 1
  1. 1.MRC Human Genetics Unit, IGMMUniversity of Edinburgh, Western General HospitalEdinburghUK
  2. 2.The Centre for Individualised Medication, Linkoping University HospitalLinkoping UniversityLinkopingSweden

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