Coupling Exonuclease Digestion with Selective Chemical Labeling for Base-resolution Mapping of 5-Hydroxymethylcytosine in Genomic DNA

Aurelien A. Serandour; Stéphane Avner; Gilles Salbert

doi:10.21769/BioProtoc.2747

Journal articles

Coupling Exonuclease Digestion with Selective Chemical Labeling for Base-resolution Mapping of 5-Hydroxymethylcytosine in Genomic DNA

Aurelien A. Serandour ^{1, 2} Stéphane Avner ³ Gilles Salbert ³

1 ECN - École Centrale de Nantes

2 CRCINA-ÉQUIPE 11 - Integrative Oncogenomics of Multiple Myeloma Pathogenesis and Progression

CRCINA - Centre de Recherche en Cancérologie et Immunologie Nantes-Angers

3 IGDR - Institut de Génétique et Développement de Rennes

Abstract : This protocol is designed to obtain base-resolution information on the level of 5-hydroxymethylcytosine (5hmC) in CpGs without the need for bisulfite modification. It relies on (i) the capture of hydroxymethylated sequences by a procedure known as 'selective chemical labeling' (see Szulwach et al., 2012) and (ii) the digestion of the captured DNA by exonucleases. After Illumina sequencing of the digested DNA fragments, an ad hoc bioinformatic pipeline extracts the information for further downstream analysis.

Keywords : Exonuclease digestion CpG Selective chemical labeling 5-Hydroxymethylcytosine

Document type :

Journal articles

Domain :

Life Sciences [q-bio] / Genetics

Complete list of metadatas

https://hal-univ-rennes1.archives-ouvertes.fr/hal-02062038
Contributor : Xavier Chard-Hutchinson <>
Submitted on : Friday, March 8, 2019 - 3:02:43 PM
Last modification on : Thursday, June 18, 2020 - 10:10:02 PM

Coupling Exonuclease Digestion with Selective Chemical Labeling for Base-resolution Mapping of 5-Hydroxymethylcytosine in Genomic DNA

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Coupling Exonuclease Digestion with Selective Chemical Labeling for Base-resolution Mapping of 5-Hydroxymethylcytosine in Genomic DNA

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