Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Gonad
Cell type
Spermatocytes
MeSH Description
Male germ cells derived from SPERMATOGONIA. The euploid primary spermatocytes undergo MEIOSIS and give rise to the haploid secondary spermatocytes which in turn give rise to SPERMATIDS.

Attributes by original data submitter

Sample

source_name
spermatocytes
age
12 days post-partum
strain background
C57BL/6J
prdm9 allele
Dom2
ChIP
input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were isolated from cells using hypotonic lysis. Chromatin was fragmented by Mnase digestion. After high speed spin soluble chromatin was removed and used for ChIP Libraries were prepared for sequencing using Bioo Scientific's NEXTflex ChIP-Seq Kit (protocol version V11.11) without size selection. Amplification of the libraries was done with 20 µL ligation product, 16 ul water, 12 µL NEXTflex ChIP PCR master mix, 2 µL NEXTflex ChIP primer mix and 14-18 cycles of PCR.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
58319960
Reads aligned (%)
96.5
Duplicates removed (%)
22.9
Number of peaks
274 (qval < 1E-05)

mm9

Number of total reads
58319960
Reads aligned (%)
96.4
Duplicates removed (%)
22.9
Number of peaks
238 (qval < 1E-05)

Base call quality data from DBCLS SRA