Dataset features

Specifications


Application: BS-seq analysis
Number of samples: 17
Release date: May 11 2012
Last update date: Nov 14 2017
Access: Public
Diseases: Ependymoma, Leukemia, Lymphocytic, Chronic, B-Cell
Dataset link Genome-wide DNA methylation analysis reveals novel epigenetic changes in chronic lymphocytic leukemia

Experimental Protocol


To perform a genome-wide analysis of DNA methylation in CLL, we applied the Reduced Representation Bisulfite Sequencing (RRBS) to CD19+ B-cells isolated from normal control and CLL peripheral blood samples. The genomic DNA from each sample was digested with the methylation-insensitive restriction enzyme MspI (restriction site, CCGG) and ligated to Illumina sequencing adaptors containing methylated cytosine residues. The ligated MspI fragments were size-selected, treated with sodium bisulfite, and amplified by PCR. The PCR products were purified and sequenced using Illumina GAIIx sequencer with a read length of 52 or 76bp. 11 CLL B-cell samples, 3 normal control samples including one each of normal CD19+, CD19+/ IgD+ naïve, and CD19+/CD27+ memory B-cell sample and three CLL cell lines (Mec-1, Mec-2, and Wac-3) were used. We generated 20-30 million Illumina sequencing reads for each sample.

Repositories


GEO

GSE32698

ArrayExpress

E-GEOD-32698

ENA

SRP008815

BioProject

PRJNA146893

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Contact


Huidong Shi