Antigen

Antigen Class

Histone

Antigen

H3K4me3

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

B6 testis

genotype/variation

Chr4-cl KO

strain

B6

cell type

testis

culture media

n/a

chip antibody

H3K4me3 (ab8580)

ChIP

ChIP (Khil et al. 2012)

mapping

Bowtie (-5 3 --best)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Native chromatin was purified and immunoprecipitated as described previously (Karimi et al., 2011). Cross-linked ChIP was performed as described previously (references are given in the sample information). Illumina Truseq (Chr2-cl WT and KO ES cells) or DNA SMART kit (Takara) (all other samples)

Sequencing Platform

instrument_model

Illumina HiSeq 3000

mm10

Number of total reads

32975985

Reads aligned (%)

91.1

Duplicates removed (%)

47.1

Number of peaks

41275 (qval < 1E-05)

mm9

Number of total reads

32975985

Reads aligned (%)

91.0

Duplicates removed (%)

47.1

Number of peaks

41250 (qval < 1E-05)