ERX101834	SAMEA1325105	Natural_variation_of_histone_modification_and_its_impact_on_gene_expression_in_rat	ChIP-Seq	GENOMIC	ChIP	xxx	xxx	xxx	xxx	Illumina_Genome_Analyzer_II	ERA129553	ERS138780	ERP001430	PRJEB3022	2014-08-12T16:22:22Z	Organism taxonomy_id="10116" taxonomy_name="Rattus norvegicus"	Age=6 week	Alias=E-MTAB-1102:lv-H3K4me3-HXB25-male-bio1-tech1.bam	Broker name=ArrayExpress	Description=Protocols: Rats were kept in the animal facility of the Institute of Physiology, Czech Academy of Science (Prague, Czech Republic) in a climate-controlled environment with 12h light/dark cycles. Rats were housed in polystyrene cages containing wood shavings and fed standard rodent chow and water ad libitum. Six weeks old male rats were sacrificed by cervical dislocation and tissue (left ventricle of the heart and liver) was collected between 8 and 10 am, snap frozen in liquid nitrogen and stored at -80 C. All animal procedures were in accordance with the Animal Protection Law of the Czech Republic. ChIP samples were prepared as previously described (Barski, A. et al. High-resolution profiling of histone methylations in the human genome. Cell 129, 823-37, 2007) with following changes: Frozen LV and liver tissue was crunched using pestle and mortar. 125mg tissue was homogenized in a Potter- Elvehjem tissue grinder, nuclei were isolated and digested with MNase (Sigma- Aldrich) to generate native chromatin templates consisting mainly of mononucleosomes. Chromatin was precipitated with anti-H3K4me3 (NEB, 9751 S), anti-H3K27me3 (Millipore, 07-449), anti-H3K4me1 (Abcam, ab8895), or anti- H4K20me1 (Abcam, ab9051) and antibody-bound DNA fragments were purified by MinElute PCR Purification Kit (QIAGEN). Specificity of immunoprecipitation was confirmed with known genes by qPCR. 50ng of DNA was used for construction of ChIP-seq libraries according to the manufacturer's protocol (Illumina/Solexa).	DevelopmentalStage=adult	INSDC center alias=Max-Delbrueck-Center, MDC, Berlin	INSDC center name=Max-Delbrueck-Center, MDC, Berlin	INSDC first public=2012-05-30T17:00:30Z	INSDC last update=2018-03-08T15:46:14Z	INSDC status=public	OrganismPart=heart	SRA accession=ERS138780	Sample Name=ERS138780	StrainOrLine=HXB25	Title=lv-H3K4me3-HXB25-male-bio1-tech1.bam