Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Muscle
Cell type
C2C12
Primary Tissue
Skeletal Muscle
Tissue Diagnosis
NOS

Attributes by original data submitter

Sample

source_name
cultured mouse myoblasts (C2C12)
genotype/variation
mDUX codon-altered
treatment
DOXYCYCLINE
antibody
anti-IgG

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Briefly, ~6x10e7 cells were fixed in 1% formaldehyde for 11 minutes, quenched with glycine, lysed, and then sonicated to generate final DNA fragments of 150–600 bp. The soluble chromatin was diluted 1:10 and pre-cleared with protein A:G beads for 2 hours. Remaining chromatin was incubated with primary antibody overnight, then protein A:G beads were added for an additional 2 hours. Beads were washed and then de-crosslinked overnight. ChIP-seq libraries were prepared from IP samples using an Ovation Ultralow Library System kit (NuGEN Technologies., San Carlos, CA, USA). ChIP-seq libraries were pooled (12-plex) and clustered onto two flow cell lanes.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
22372971
Reads aligned (%)
97.0
Duplicates removed (%)
17.8
Number of peaks
345 (qval < 1E-05)

mm9

Number of total reads
22372971
Reads aligned (%)
96.8
Duplicates removed (%)
17.8
Number of peaks
306 (qval < 1E-05)

Base call quality data from DBCLS SRA