Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
MLL-AF9 leukemic cell
NA
NA

Attributes by original data submitter

Sample

source_name
MA9-transformed mouse leukemia
tissue
bone marrow
cell type
Lin-Sca-1+c-Kit+
genotype
MLL-AF9 fusion
treatment
none

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Cell nuclei were fresh prepared from 50,000 cells as previously described (Buenrostro et al. 2013 Nature Methods). ATAC-seq was performed as previously described (Buenrostro et al. 2013 Nature Methods). For each sample, cell nuclei were prepared from 50,000 cells, and incubated with 2.5 uL transposase (Illumina) in a 50 uL reaction for 30 min at 37°C. Following purification of transposase fragmented DNA, the library was amplified by PCR and subjected to high-throughput sequencing using Illumina HiSeq 2500 platform.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
155513718
Reads aligned (%)
93.8
Duplicates removed (%)
77.7
Number of peaks
11418 (qval < 1E-05)

mm9

Number of total reads
155513718
Reads aligned (%)
93.7
Duplicates removed (%)
77.8
Number of peaks
11398 (qval < 1E-05)

Base call quality data from DBCLS SRA