alias: GSM3681096
title: GSM3681096: WT_2_targeted_bis_seq; Mus musculus; Bisulfite-Seq
library_construction_protocol: mice (10-12 weeks of age) were sacrificed, the brains were rapidly removed, and bi-lateral hippocampi were isolated, flesh frozen and stored at -80°C for later analysis. DNA was extracted with AllPrep-DNA/RNA/miRNA-universal kit according to the manufacturer protocol. The SeqCap Epi Enrichment System (Roche NimbleGen, Laval, QC) for targeted bisulfite sequencing of promoters and enhancers in the mouse genome was used. Mouse target probes (mm9) were custom designed based on H3K4me1 and H3K4me3 signals from mouse public ChIP-seq data. A total of 83276 regions were targeted by the probes which spans 64760111 base pairs. Biotinylated target probes were designed for both strands of bisulfite converted genomic DNA. Bisulfite treated genomic DNA was ligated to methylated next generation sequencing (NGS) adaptors, hybridized to the biotinylated oligonucleotide probes followed by a series of washes of off-target DNA sequences and unbound DNA. Isolated DNA then underwent PCR amplification and sequenced on Illumina Hiseq 2000 with pair-end 50bp reads and replication with 125bp pair-end reads was performed as well.
identifiers.namespace: GEO
identifiers.id: GSM3681096