Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

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

Attributes by original data submitter

Sample

source_name
ES cells
strain
C57BL/6J
tissue
ES cells
genotype
WT
Sex
male
antibody
H3K9me3 (Abcam, ab8898, lot GR285794-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA was extracted using tale lysis buffer (50mM Tris-Cl pH8.5; 5mM EDTA; 200mM Nacl; 0.25% SDS) and 1 µg/ml Proteinase K for 1 hr. The mixture was purified with phenol/chloroform extraction and precipitated with isopropanol. Paired-end libraries were prepared and sequenced in 150bp reads run according to Illumina instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
24398076
Reads aligned (%)
94.0
Duplicates removed (%)
21.2
Number of peaks
4162 (qval < 1E-05)

mm9

Number of total reads
24398076
Reads aligned (%)
93.8
Duplicates removed (%)
21.2
Number of peaks
4216 (qval < 1E-05)

Base call quality data from DBCLS SRA