Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Gonad
Cell type
Testicular germ cells
NA
NA

Attributes by original data submitter

Sample

source_name
miwi2HET_GermCellsTestis_FACS_inputDNA
strain background
C57BL/6
age
post natal day 10
genotype/variation
Miwi2 Het
tissue/cell type
testicular germ cells, FACS - sorted

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
In case of testicular cells, fixed cells were sorted using either FACS or MACS. Cells were sonicated in lysis buffer, and histone-DNA complexes were isolated from the cleared lysate using a-H3K9me3 antibody. ChIP-seq libraries were constructed using NEBNext ChIP-seq Library Prep Master Kit (NEB, E6240) and amplified using NEBNext Multiplex Oligos for Illumina (NEB, E7335). Final libraries were purified from 1.2% agarose gel - 200-450 bp fragments were excised. RNA-seq libraries were consucted using Illumina TruSeq RNA sample prep kit (v2, 48 rxns, RS-122-2001).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
29210753
Reads aligned (%)
92.3
Duplicates removed (%)
19.8
Number of peaks
645 (qval < 1E-05)

mm9

Number of total reads
29210753
Reads aligned (%)
92.2
Duplicates removed (%)
19.9
Number of peaks
692 (qval < 1E-05)

Base call quality data from DBCLS SRA