Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EZH2

Cell type

Cell type Class
Neural
Cell type
KELLY
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
Neuroblastoma cells
cell line
Kelly
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
27024402
Reads aligned (%)
91.4
Duplicates removed (%)
7.0
Number of peaks
996 (qval < 1E-05)

hg38

Number of total reads
27024402
Reads aligned (%)
93.4
Duplicates removed (%)
5.7
Number of peaks
844 (qval < 1E-05)

Base call quality data from DBCLS SRA