Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA2

Cell type

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

Attributes by original data submitter

Sample

source_name
FOXA2 ChIP dEN
cell line
Definitive Endoderm (ES derived)
chip antibody
FoxA2 Antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were generated as previously described (Mikkelsen et al., 2010, Gifford et al., 2013) and Libraries were sequenced on a HiSeq 2500 at 11pmol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
69519436
Reads aligned (%)
123.3
Duplicates removed (%)
34.2
Number of peaks
29191 (qval < 1E-05)

hg38

Number of total reads
69519436
Reads aligned (%)
125.2
Duplicates removed (%)
33.7
Number of peaks
29585 (qval < 1E-05)

Base call quality data from DBCLS SRA