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
muscle
cell line
C2C12
tissue
muscle
cell type
myotube
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For TY1,HRP2 and DPF3a ChIP, cells were double cross-linked with DMA and 1% formaldehyde. For H3K36me2 ChIP, cells were cross-linked with 1% formaldehyde. The crosslink was stopped by adding 2.5 M glycine. Cells were washed with PBS and harvested using ChIP lysis buffer. Cells were then sonicated to obtain fragments (100-500 bp) with Bioruptor Sonicator. Immunoprecipitation was performed withTY1, HRP2 (15134-1-AP), DPF3a and H3K36me2 (ab9049). After elution and reversal cross-linking, DNA was purified and sequenced on HiSeq X ten. Construction of ChIP-seq library was performed using VAHTSTM Universal DNA Library Prep Kit for Illumina® V3 (Vazyme).

Sequencing Platform

instrument_model
HiSeq X Ten

mm10

Number of total reads
28858955
Reads aligned (%)
95.8
Duplicates removed (%)
15.0
Number of peaks
201 (qval < 1E-05)

mm9

Number of total reads
28858955
Reads aligned (%)
95.7
Duplicates removed (%)
14.9
Number of peaks
177 (qval < 1E-05)

Base call quality data from DBCLS SRA