Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
416B
Tissue
Blood
Lineage
cellLine
Description
myeloid progenitor cells, CD34+

Attributes by original data submitter

Sample

source_name
416b cell line
cell line
416b
tissue
bone marrow-derived progenitor cells
cell type
416b cell line
culture properties
suspension
genotype
PLZF-Flag

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
For RNA-seq, total RNA were extracted with RNeasy Plus Mini kit (Qiagen). For ATAC-seq and ChIP-seq home-made protocols were used (see Materials and Methods) ChIP-seq : MicroPlex Library Preparation Kit (Diagenode) ; ATAC-seq : Nextera DNA Library Prep Kit (Illumina) ; RNA-seq in GMPs : TruSeq Stranded Total RNA with Ribo Zero Gold kit (Illumina) ; RNA-seq in 416b : SMART-Seq v3 Ultra Low Input RNA kit for (Clontech)

Sequencing Platform

instrument_model
Illumina HiSeq 1500

mm10

Number of total reads
21926350
Reads aligned (%)
98.3
Duplicates removed (%)
39.9
Number of peaks
12253 (qval < 1E-05)

mm9

Number of total reads
21926350
Reads aligned (%)
98.1
Duplicates removed (%)
39.9
Number of peaks
12248 (qval < 1E-05)

Base call quality data from DBCLS SRA