Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
5-mC

Cell type

Cell type Class
Embryonic fibroblast
Cell type
C3H/10T1/2
NA
NA

Attributes by original data submitter

Sample

source_name
10T1/2 MSCs
cell type
10T1/2 mesenchymal stem cells
ChIP
m5CpG
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
36496051
Reads aligned (%)
95.2
Duplicates removed (%)
48.3
Number of peaks
129665 (qval < 1E-05)

mm9

Number of total reads
36496051
Reads aligned (%)
94.5
Duplicates removed (%)
48.1
Number of peaks
129556 (qval < 1E-05)

Base call quality data from DBCLS SRA