Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BCL6

Cell type

Cell type Class
Blood
Cell type
ICN12
NA
NA

Attributes by original data submitter

Sample

source_name
ICN12 cells
cell type
primary pre-B acute lymphomablastic leukemia
chip antibody
BCL6

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA-fragment libraries were prepared using the Illumina ChIP-seq Library preparation Kit following the manufacture’s instructions (Illumina, CA). Briefly 10ng of purified ChIP DNA was end repaired by conversion of overhangs into phosphorylated blunt ends with the use of T4 DNA polymerase and E. coli DNA polymerase I Klenow fragment. Illumina single-end adapters were ligated to the ends of the DNA fragments. Ligation products were purified on a 2% agarose gel with a size selection of 200-300bp. Fifteen PCR cycles were performed with Illumina genomic DNA primers that anneal to the ends of the adapters. The purified PCR-amplified fragment libraries were quantified with the use of the PicoGreen dsDNA Quantitation Assay with the Qubit Fluorometer (Invitrogen, CA). The size range of libraries was validated on the Agilent Technologies 2100 Bioanalyzer with the High Sensitivity DNA Kit (Agilent, CA).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
28447033
Reads aligned (%)
183.4
Duplicates removed (%)
4.5
Number of peaks
10507 (qval < 1E-05)

hg38

Number of total reads
28447033
Reads aligned (%)
184.5
Duplicates removed (%)
4.3
Number of peaks
10580 (qval < 1E-05)

Base call quality data from DBCLS SRA