Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EZH2

Cell type

Cell type Class
Blood
Cell type
Farage
Primary Tissue
Blood
Tissue Diagnosis
Lymphoma Non-Hodgkins

Attributes by original data submitter

Sample

source_name
Farage cell line
cell type
Farage cell line
treatment
NA
chip antibody
anti-EZH2 (Millipore, 07-689, lot DAM1834941)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed as previously described (Ci et al., Blood, 2009). Briefly, 108 cells were fixed with 1% formaldehyde, lysed, and sonicated (Branson Sonicator; Branson) leading to a DNA average size of 200 bp. Five µg of antibodies were added to the precleared sample and incubated overnight at 4°C. The complexes were purified using protein-A beads (Roche) followed by elution from the beads and decrosslinking. DNA was purified using PCR purification columns (QIAGEN). ChIP-seq and RNA-seq libraries were prepared using the Illumina ChIP-Seq and TruSeq RNA sample kits, respectively, according to the manufacturer. Libraries were validated using the Agilent Technologies 2100 Bioanalyzer and Quant-iT™ dsDNA HS Assay (Life Technologies)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
179002498
Reads aligned (%)
68.5
Duplicates removed (%)
22.0
Number of peaks
3074 (qval < 1E-05)

hg38

Number of total reads
179002498
Reads aligned (%)
70.3
Duplicates removed (%)
20.4
Number of peaks
3761 (qval < 1E-05)

Base call quality data from DBCLS SRA