Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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 Minus
cell line
H9 hESCs with Dox inducible Glis3 expression
time
12 hr
chip antibody
none (input)

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
94962673
Reads aligned (%)
98.1
Duplicates removed (%)
3.6
Number of peaks
1359 (qval < 1E-05)

hg19

Number of total reads
94962673
Reads aligned (%)
97.4
Duplicates removed (%)
4.5
Number of peaks
1292 (qval < 1E-05)

Base call quality data from DBCLS SRA