Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
WT_Retinoic acid treated ES cells
strain
mixed C57BL/6 CD1
genotype/variation
Utx fl/fl, Jmjd3 fl/fl, CreER
treated with
retinoic acid (2D)
cell type
Retinoic acid treated ES cells
passages
passage 9
chip antibody
Input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were trypsinized, then fixed in 0.6% Formaldehyde. Cells were sonicated, then antibody ChIP. DNA was end repaired, A-tailed, then Illumina barcode adaptors were ligated and amplified.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
8844857
Reads aligned (%)
98.2
Duplicates removed (%)
11.6
Number of peaks
336 (qval < 1E-05)

mm9

Number of total reads
8844857
Reads aligned (%)
97.9
Duplicates removed (%)
11.8
Number of peaks
336 (qval < 1E-05)

Base call quality data from DBCLS SRA