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
TT2 ESCs
cell type
TT2 embryonic stem cells
ChIP
Input
day
-
sirna/shrna
-

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Sonicated nuclear fraction was incubated with each antibody and histone-DNA or SETDB1-DNA complexes were isolated. Sonicated DNA was incubated with MBD domain of MBD1 and m5CpG was isolated. Libraries were prepared according to Illumina's instructions.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

mm10

Number of total reads
41828410
Reads aligned (%)
97.5
Duplicates removed (%)
17.4
Number of peaks
787 (qval < 1E-05)

mm9

Number of total reads
41828410
Reads aligned (%)
97.3
Duplicates removed (%)
17.5
Number of peaks
878 (qval < 1E-05)

Base call quality data from DBCLS SRA