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
embryonic stem cells
cell line
F123 ESC
strain
F1 hybrid (castaneus x S129/SvJae)
chip antibody
none
genotype
Syn1-6-insertion

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked cells were processed by Covaris truChIP Chromatin Shearing kit and chromatin were sonicated to 300-500bp by Covaris M220. ChIP DNA and Input DNA were constucted into illumina Tru-seq libraries as previously described (Jian Yan et al., 2013), followed by size selection for 300-500bp.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
15340315
Reads aligned (%)
90.9
Duplicates removed (%)
22.2
Number of peaks
177 (qval < 1E-05)

mm9

Number of total reads
15340315
Reads aligned (%)
90.8
Duplicates removed (%)
22.8
Number of peaks
165 (qval < 1E-05)

Base call quality data from DBCLS SRA