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

RJ2_H3K4me3_ChIPseq

strain

B10.MOLSGR(A)-(D17Mit58-D17Jcs11)/Bdm

tissue/cells

elutriated testis cells (pachytene)

age

adult

chip antibody

anti-H3K4me3 (Abcam, ab8580)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cell suspension was prepared by filtering homogenized tissue, then lysed.Lysates were sonicated and chromatin complexes were isolated with appropriate antibody. Standard library construction was performed with the Illumina Trueseq protocol (Illumina, IP-202-9001DOC). For DMC1 ChIP an additional step of kinetic enrichment was performed as described in Khil et al. 2012. ChIP-seq for all but DMC1 CHIPseq experiment ; SSDS method described in Khil et al. 2012 for DMC1 ChIPseq

Sequencing Platform

instrument_model

Illumina Genome Analyzer II

mm10

Number of total reads

43780462

Reads aligned (%)

99.1

Duplicates removed (%)

46.5

Number of peaks

30474 (qval < 1E-05)

mm9

Number of total reads

43780462

Reads aligned (%)

99.0

Duplicates removed (%)

46.7

Number of peaks

30346 (qval < 1E-05)