Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EZH2

Cell type

Cell type Class
Gonad
Cell type
A-1847
NA
NA

Attributes by original data submitter

Sample

source_name
A1847 cell line
cell line
A1847
genotype/variation
CARM1 wild type
antibody
anti-EZH2 (Cell Signaling, Cat. No. 5246)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were cross-linked with 1% formaldehyde for 10 min, followed by quenching with 125 mM glycine for 5 min. Fixed cells were resuspended in cell lysis buffer (10 mM Tris-HCl, pH7.5, 10 mM NaCl, 0.5% NP-40) and incubated on ice for 10 min. The lysates were washed with MNase digestion buffer (20 mM Tris-HCl, pH7.5, 15 mM NaCl, 60 mM KCl, 1 mM CaCl2) once and incubated for 20 minutes at 37 °C in the presence of 1,000 Gel units of MNase (NEB, M0247S) in 250 L reaction volume. After adding the same volume of sonication buffer (100 mM Tris-HCl, pH8.1, 20 mM EDTA, 200 mM NaCl, 2% Triton X-100, 0.2% Sodium deoxycholate), the lysates were sonicated for 5 min (30 sec-on / 30 sec-off) in a Diagenode bioruptor and centrifuged at 15,000 rpm for 10 min Ovation Ultralow DR Multiplex system (NuGEN)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
26712865
Reads aligned (%)
194.5
Duplicates removed (%)
0.7
Number of peaks
385 (qval < 1E-05)

hg38

Number of total reads
26712865
Reads aligned (%)
196.3
Duplicates removed (%)
0.4
Number of peaks
441 (qval < 1E-05)

Base call quality data from DBCLS SRA