SRX3481055
GSM2893678: AP2Cd7Off 2; Homo sapiens; ATAC-seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC derived ectodermal cells
NA
NA

Attributes by original data submitter

Sample

source_name
early surface ectoderm differentiation from hESC
originating cell line
H9
cell type
control ES without specific differentiation
genotype/variation
TetO-TFAP2C
treatment and stage
Dox- for 7 days

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Around 50,000 cells were used for each transposition reaction. Nuclei were prepared prior to transposition. Sequencing libraries were constructed using a modified version of the Illumina Nextera DNA Sample prep kit.

Sequencing Platform

instrument_model
NextSeq 500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
84778585
Reads aligned (%)
68.2
Duplicates removed (%)
25.8
Number of peaks
9774 (qval < 1E-05)

hg19

Number of total reads
84778585
Reads aligned (%)
67.8
Duplicates removed (%)
26.1
Number of peaks
9366 (qval < 1E-05)

Base call quality data from DBCLS SRA