Dataset features

Specifications


Application: DNA methylation array analysis
Number of samples: 8
Release date: Mar 17 2017
Last update date: Nov 27 2018
Access: Public
Diseases: Neoplasms
Dataset link Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA [HumanMethylation450]

Experimental Protocol


For WG Bis/OxBis-seq, 200ng of DNA was treated in separate aliquots with CEGX bisulphite (Bis) and oxidative bisulphite (OxBis) reagents followed by library preparation and paired-end 150bp sequencing on Illumina HiSeqX platform using the HiSeq X™ Ten Reagent Kit v2. For HM450K Bis/OxBis, DNA was treated in separate aliqots with CEGX bisulphite (Bis) and oxidative bisulphite (OxBis) reagents with two replicas being performed for each Bis and OxBis workflow. For hMeDIP-seq, DNA was sonicated to the size range of 300-500bp. Prior to hMeDIP procedure, Illumina adaptors were ligated (5x 1ug) of fragmented DNA according to TruSeq LT DNA sample preparation kit (Illumina) followed by DNA denaturation and immunoprecipitation overnight with 5hmC polyclonal antibody (Active Motif cat no 55010).

Repositories


GEO

GSE94326

BioProject

PRJNA369383

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Contact


Ksenia Skvortsova