Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rest

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
wt (ctrl for Rest)
cell type
mESC
chip antibody
rabbit anti-REST (Millipore, 07-579)
chip antibody manufacturer
Millipore

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
30973229
Reads aligned (%)
95.5
Duplicates removed (%)
22.4
Number of peaks
4542 (qval < 1E-05)

mm9

Number of total reads
30973229
Reads aligned (%)
95.2
Duplicates removed (%)
22.5
Number of peaks
4704 (qval < 1E-05)

Base call quality data from DBCLS SRA