Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Blood
Cell type
CLL
Tissue
blood
Lineage
mesoderm
Description
chronic lymphocytic leukemia cell, T-cell lymphocyte

Attributes by original data submitter

Sample

source_name
Primary CLL cells
antibody
Histone H3K27ac antibody Active Motif, cat#39133
tissue
Peripheral blood Chronic Lymphocytic Leukemia (CLL) cells
conditions
n/a

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked chromatin was fragmented by sonication with the Bioruptor sonicator (Diagenode) to achieve fragment sizes of ~200–500 base pairs using the following sonication buffer: 10mM Tris-HCl pH 8.0, 100mM NaCl, 1mM EDTA pH 8.0, 0.5mM EGTA pH 8.0, 0.1% Na-Deoxycholate, 0.5% N-lauroylsarcosine. ChIP-seq libraries were constructed starting from 4ng of ChIP or Input DNA as reported in Blecher-Gonen et al., 2013, Nature protocol. Libraries were quantified using the KAPA SYBR FAST Universal qPCR Kit (KAPA Biosystems), normalized to 10nM, pooled and sequenced in an Illumina HiSeq 2500 instrument as single-end 101 bp reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
15291785
Reads aligned (%)
96.7
Duplicates removed (%)
9.5
Number of peaks
14984 (qval < 1E-05)

hg19

Number of total reads
15291785
Reads aligned (%)
96.1
Duplicates removed (%)
10.1
Number of peaks
14870 (qval < 1E-05)

Base call quality data from DBCLS SRA