Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Bisulfite-Seq
Antigen
Bisulfite-Seq

Cell type

Cell type Class
Cardiovascular
Cell type
Cardiac fibroblasts
NA
NA

Attributes by original data submitter

Sample

source_name
neonatal mouse heart
strain
Cd1
genotype
alphaMHC-GFP
exogenous retroviral expression
dsRed
chemical treatment
none
reprogramming time point
Day 7
cell type
dsRed+ sorted fibroblasts (control infection)

Sequenced DNA Library

library_strategy
Bisulfite-Seq
library_source
GENOMIC
library_selection
RANDOM
library_construction_protocol
Genomic DNA was isolated using the Qiagen DNeasy Blood and Tissue kit (Cat No./ID: 69504). Purified gDNA was fragmented using a Covaris S2 Sonicator. Libraries were prepared with 10ug gDNA using the Ovation® Ultralow Methyl Seq DR Multiplex System 1-8, 9-16 (NuGen 0335 and 0336). Libraries were pooled and sequenced at 100PE on a HiSeq 2000 in standard run mode to a read depth of >180M mapped reads at the Harvard FAS core.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
219039589
Reads aligned (%)
82.8
Coverage rate (×)
5.5
Number of hyper MRs
294745 (qval < 1E-05)

mm9

Number of total reads
219039589
Reads aligned (%)
83.8
Coverage rate (×)
5.5
Number of hyper MRs
294467 (qval < 1E-05)

Base call quality data from DBCLS SRA