Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H9
NA
NA

Attributes by original data submitter

Sample

source_name
G3-hESCs
treatment
Doxycycline Plus
cell line
H9 hESCs with Dox inducible Glis3 expression
time
12 hr
chip antibody
HA antibody (Cell Signaling, Catalog # C29F4)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq, Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with A/G-conjugated magnetic beads with a HA-antibody. ChIPed DNA was amplified using a TruSeq ChIP Library prep kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
64200007
Reads aligned (%)
95.5
Duplicates removed (%)
6.8
Number of peaks
36256 (qval < 1E-05)

hg19

Number of total reads
64200007
Reads aligned (%)
94.8
Duplicates removed (%)
7.7
Number of peaks
36063 (qval < 1E-05)

Base call quality data from DBCLS SRA