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.

Sample

source_name

F3_Testis_Control_Input_DNA

strain

CD1

chip antibody

none

generation

F3

treatment

control

tissue

testis

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP seq protocol one testis from 12 weeks old males was used. Tissue was fixed with paraformaldehyde and sonicated to receive the average size of chromatin 500bp, histone DNA complexes were isolated with H3K4me3 antibody. The immunoprecipitated DNA was purified with Qiagen MinElute kit. For RNA-seq 10 mkg of total RNA was used. Total RNA was extracted using Trizol reagent The libraries were prepared from 50 ng of ChiP and input material using the NEBNext Ultra DNA library Prep Kit for Illumina (NEB #E7370S). massively parallel 50-bp sequencing in single end mode for

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

47234423

Reads aligned (%)

88.4

Duplicates removed (%)

26.2

Number of peaks

439 (qval < 1E-05)

mm9

Number of total reads

47234423

Reads aligned (%)

88.2

Duplicates removed (%)

26.2

Number of peaks

478 (qval < 1E-05)