Antigen

Antigen Class

Bisulfite-Seq

Antigen

Bisulfite-Seq

Cell type

Cell type Class

Neural

Cell type

Brain

MeSH Description

The part of CENTRAL NERVOUS SYSTEM that is contained within the skull (CRANIUM). Arising from the NEURAL TUBE, the embryonic brain is comprised of three major parts including PROSENCEPHALON (the forebrain); MESENCEPHALON (the midbrain); and RHOMBENCEPHALON (the hindbrain). The developed brain consists of CEREBRUM; CEREBELLUM; and other structures in the BRAIN STEM.

Sample

source_name

whole brain

strain

C57BL/6

genotype/variation

wild type

Sequenced DNA Library

library_strategy

Bisulfite-Seq

library_source

GENOMIC

library_selection

RANDOM

library_construction_protocol

200 ng of genomic DNA was fragmented using a Covaris S2 for 6 min according to the following program: duty cycle 5%; intensity 5; cycle per burst 200. The sheared DNA was purified using the DNA Clean & Concentrator kit from Zymo Research per the manufacturer’s recommendations. Bisulfite conversion of DNA was then conducted using the EZ DNA Methylation-Gold kit (Zymo Research) followed the instructions, eluting to 15 μl low TE buffer. To minimize continual loss during storage, the converted DNA was immediately processed for generating WGBS libraries using the Accel-NGS Methyl-Seq DNA library kit (Swift Biosciences) following the manufacturer’s protocol.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

148235443

Reads aligned (%)

89.3

Coverage rate (×)

4.1

Number of hyper MRs

257916 (qval < 1E-05)

mm9

Number of total reads

148235443

Reads aligned (%)

89.8

Coverage rate (×)

4.2

Number of hyper MRs

257271 (qval < 1E-05)