Antigen

Antigen Class

Histone

Antigen

H3K4me3

Cell type

Cell type Class

Embryo

Cell type

Blastocyst Inner Cell Mass

MeSH Description

The cluster of cells inside a blastocyst. These cells give rise to the embryonic disc and eventual embryo proper. They are pluripotent EMBRYONIC STEM CELLS capable of yielding many but not all cell types in a developing organism.

Sample

source_name

ICM

antibodies

H3K4me3

cell type

ICM

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Immunoprecipitated DNA was extracted with phenol-chloroform, ethanol-precipitated and treated with RNase. ChIP-Seq was carried out using antibodies against RNA PolymeraseII or H3K4me3, as previously described (Goren et. al. (2010))

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

18407025

Reads aligned (%)

98.7

Duplicates removed (%)

26.0

Number of peaks

5362 (qval < 1E-05)

mm9

Number of total reads

18407025

Reads aligned (%)

98.7

Duplicates removed (%)

26.0

Number of peaks

5256 (qval < 1E-05)