Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
MD901
NA
NA

Attributes by original data submitter

Sample

source_name
MD901 cells
cell type
diffuse large B-cell lymphoma cell line
genotype/variation
CREBBP knock-down
chip antibody
NA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was sheared to 200-400bp, incubated with H3K27ac antibody (abcam 4729) overnight at 4C on a rocker, antibody chromatin complex was captured by ProteinA agarose beads, washed with low salt, high salt, LiCl, and TE buffer, eluted and then de-crosslinked at 65C with 0.3M NaCl final for at least 6 hr. Final chormatin was purified using Qiagen PCR purification columns. Libraries were prepared using the Illumina Truseq ChIPseq Library preparation Kit following the manufacture’s instructions (Illumina, CA).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
33309630
Reads aligned (%)
88.0
Duplicates removed (%)
25.0
Number of peaks
29656 (qval < 1E-05)

hg19

Number of total reads
33309630
Reads aligned (%)
87.6
Duplicates removed (%)
25.4
Number of peaks
29638 (qval < 1E-05)

Base call quality data from DBCLS SRA