Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Blood
Cell type
SEM
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
H3K27ac_Control
cell line
Leukemia cell line (SEM)
treatment
DMSO for 7 days
cell type
Paediatric pro B-cell line derived from ALL with t(4;11)(q21;q23) translocation
chip antibody
H3K27ac (Diagenode C15410196)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were washed with PBS and fixed in either 1% FA for 10 minutes (histones) or 2mM DSG for 30 minutes and 1% FA for 30 minutes (transcription factors). Cells were sonicated to give fragments of 100-300bp followed by IP. For ChIP-rx fixed SEM cells were mixed at a 4:1 ratio with fixed Drosophila S2 cells prior to sonication. DNA libraries were made using the NEBnext ultra DNA library preparation kit for Illumina (Cat no. E7370).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
17162501
Reads aligned (%)
87.9
Duplicates removed (%)
0.6
Number of peaks
11762 (qval < 1E-05)

hg19

Number of total reads
17162501
Reads aligned (%)
87.2
Duplicates removed (%)
0.7
Number of peaks
11710 (qval < 1E-05)

Base call quality data from DBCLS SRA