Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

Cell type

Cell type Class
Blood
Cell type
Pre-B cells
NA
NA

Attributes by original data submitter

Sample

source_name
BCR-ABL1 transformed p19 null preB-ALL
strain
C57BL/6J
cell type
pre-B cell leukemia
genotype
BCR-ABL1 overexpressed p19 null
antibody
H3K27me3 (ab6002, abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
preB-ALL cells were crosslinked with formaldehyde solution. Nuclei were isolated as previously described and sonicated in lysis buffer. DNA was purified with phenol-chloroform extraction and ethanol precipitation. Purified ChIP DNA was used to prepare Illumina multiplexed sequencing libraries. Libraries were prepared following the TruSeq DNA Sample Prep v2 Kit (Illumina). Amplified libraries were size-selected using a 2% gel cassette in the Pippin Prep system (Sage Science) set to capture fragments between 200-400 bp. Libraries were quantified by qPCR using the Illumina Library Quantification Kit (KAPA Biosystems) according to manufacturer guidelines. Libraries were sequenced on the Illumina HiSeq2500 for 40-nt in single read mode.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
53031094
Reads aligned (%)
34.7
Duplicates removed (%)
12.2
Number of peaks
1399 (qval < 1E-05)

mm9

Number of total reads
53031094
Reads aligned (%)
34.6
Duplicates removed (%)
12.3
Number of peaks
1857 (qval < 1E-05)

Base call quality data from DBCLS SRA