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 background
C57BL/6
cell type
embryonic stem cells (ESCs)
genotype/variation
Np95 (flox/flox) conditional alleles; CreERT2 transgene
treated with
With 4-OHT (day 4)
chip antibody
Anti-H3K9me3 mAb (MBL, MABI0318)
molecule subtype
Crosslinked chromatin

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA was isolated using QIAGEN All-prep kit Libraries were prepared according to NEB's instructions accompanying the NEBNext® ChIP-seq Library Prep Reagent set for Illumina. Adapter ligated DNA was PCR amplified with Illumina primers for 15 cycles. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Hi-Seq 1000 following the manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 1500

mm10

Number of total reads
32377877
Reads aligned (%)
94.0
Duplicates removed (%)
20.9
Number of peaks
592 (qval < 1E-05)

mm9

Number of total reads
32377877
Reads aligned (%)
93.6
Duplicates removed (%)
20.9
Number of peaks
653 (qval < 1E-05)

Base call quality data from DBCLS SRA