Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Gonad
Cell type
Testis
MeSH Description
The male gonad containing two functional parts: the SEMINIFEROUS TUBULES for the production and transport of male germ cells (SPERMATOGENESIS) and the interstitial compartment containing LEYDIG CELLS that produce ANDROGENS.

Attributes by original data submitter

Sample

source_name
Testis
maternal strain
C57Bl/6J
paternal strain
B10.F-H2pb1/(13R)J
antibody
n/a
sequencing technique
SSDS

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For DMC1 SSDS, testicular samples were obtained frozen and were directly thawed in 1% paraformaldehyde and gently dissociated. Genomic DNA for whole genome sequencing was extracted from the testicular samples before fixation with the DNeasy Blood and Tissue kit (Qiagen). DMC1 ChIP was performed as described previously (Smagulova et al., 2011; Khil et al., 2012; Brick et al., 2012) with minor modifications. Sequencing libraries for anti-DMC1 were prepared following the method described in (Khil et al., 2012). Single Stranded DNA Sequencing (SSDS)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
85971619
Reads aligned (%)
36.1
Duplicates removed (%)
4.1
Number of peaks
337 (qval < 1E-05)

mm9

Number of total reads
85971619
Reads aligned (%)
36.0
Duplicates removed (%)
4.6
Number of peaks
322 (qval < 1E-05)

Base call quality data from DBCLS SRA