Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EZH2

Cell type

Cell type Class
Neural
Cell type
LAN-1
NA
NA

Attributes by original data submitter

Sample

source_name
Neuroblastoma cells
cell line
LAN-1
chip antibody
anti-EZH2 (Cell Signaling 5246S)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Precipitates were washed sequentially with ice cold low salt wash (0.1% SDS, 1% Triton-X- 100, 2 mM EDTA, 20 mM Tris-HCl, pH8.1, 150 mM NaCl), high salt wash (0.1% SDS, 1% Triton-X-100, 2 mM EDTA, 20 mM Tris-HCl, pH 8.1, 500 mM NaCl), LiCl wash (0.25M LiCl, 1% IGEPALCA-630, 1% deoxycholic acid, 1 mM EDTA, 10 mM Tris-HCl, pH 8.1) and then twice with TE (1 mM EDTA, 10 mM Tris-HCl, pH 8.1). They were then eluted and reverse cross-linked in elution/reverse cross-linking buffer (1% SDS, 0.1 M NaHCO3, 0.2 M NaCl) for 5 hours. Eluted DNA fragments were barcoded with a NEBNext DNA library preparation kit (NEB, Ipswich, MA) and subjected to sequencing on Illumina HiSeq 2000 platform.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
30636743
Reads aligned (%)
92.3
Duplicates removed (%)
5.9
Number of peaks
1118 (qval < 1E-05)

hg38

Number of total reads
30636743
Reads aligned (%)
94.4
Duplicates removed (%)
4.5
Number of peaks
1049 (qval < 1E-05)

Base call quality data from DBCLS SRA