Antigen

Antigen Class

Histone

Antigen

H3K27me3

Cell type

Cell type Class

Embryo

Cell type

Primordial germ cells

NA

NA

Sample

source_name

primordial germ cells

cell type

SSEA1+ primordial germ cells

genotype

Setdb1 delta/- (KO)

Sex

male

antibody

H3K27me3 (Diagenode #pAb-069-050)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Primordial germ cells (SSEA1+) and Somatic gonadal cells (SSEA-) were isolated from the gonads of E13.5 embryos and purified by FACS. Cells were sorted directly in nuclear isolation buffer containing RNAse inhibitor and protease inhibitor cocktail. For RNA-seq libraries, RNA was extracted using TriReagent, and dsCDNA was synthesized using Superscript III and Klenow fragment, respectively. For ChIP-seq libraries, DNA was extracted from immunoprecipitated DNA-protein complexes using phenol:chloroform:isoamyl alcohol 25:24:1. Adaptor ligation based library construction for paired-end Illumina sequencing.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

47898569

Reads aligned (%)

86.6

Duplicates removed (%)

33.5

Number of peaks

277 (qval < 1E-05)

mm9

Number of total reads

47898569

Reads aligned (%)

99.3

Duplicates removed (%)

15.4

Number of peaks

83 (qval < 1E-05)