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
Mouse embryotic stem cells
genotype
Rest-/-
cell type
mESC
chip antibody
Rabbit IgG (DAKO)
chip antibody manufacturer
DAKO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed for 10 min in culture media containing 1% formaldehyde and were processed for ChIP as in Dietrich et al. (2007) EMBO J 26: 1637–1648. DNA from three parallel ChIPs were pooled and 10 ng was used for making ChIP-seq libraries. Libraries were generated according to Illumina recommendations and sequencing was done on a Genome Analyzer II (Illumina).

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

mm10

Number of total reads
31958248
Reads aligned (%)
96.8
Duplicates removed (%)
19.1
Number of peaks
745 (qval < 1E-05)

mm9

Number of total reads
31958248
Reads aligned (%)
96.6
Duplicates removed (%)
19.2
Number of peaks
838 (qval < 1E-05)

Base call quality data from DBCLS SRA