Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Nanog

Cell type

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

Attributes by original data submitter

Sample

source_name
mouse embryonic stem cells
cell line
Sim2-expressing cells
clone
A6
antibody
anti-Nanog (D2A3) XP® (Cell Signaling #8822)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed using the SimpleChIPTM Enzymatic Chromatin IP Kit (Cell Signaling #9003) according to manufacturer’s instructions. Preparation of the libraries for high throughput sequencing was performed using the ChIP-Seq DNA sample Prep Kit (Illumina #IP-102-1001), following the manufacturer’s instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
24909141
Reads aligned (%)
97.6
Duplicates removed (%)
36.5
Number of peaks
6074 (qval < 1E-05)

mm9

Number of total reads
24909141
Reads aligned (%)
97.2
Duplicates removed (%)
36.5
Number of peaks
6051 (qval < 1E-05)

Base call quality data from DBCLS SRA