characteristics.text: 2012-05-30T17:00:31Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2018-03-08T15:46:41Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA1325270
characteristics.characteristic: External Id
characteristics.text: Max-Delbrueck-Center, MDC, Berlin
characteristics.characteristic: INSDC center name
characteristics.text: 2012-05-30T17:00:31Z
characteristics.characteristic: INSDC first public
characteristics.text: 2018-03-08T15:46:41Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS138837
characteristics.characteristic: SRA accession
characteristics.text: SHR
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/RS_0000015
characteristics.characteristic: StrainOrLine
characteristics.text: E-MTAB-1102:liver-H3K4me3-SHR-male-bio4-tech1.bam
characteristics.characteristic: Submitter Id
characteristics.text: 6 week
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/UO_0000034
characteristics.characteristic: age
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: Norway rat
characteristics.characteristic: common name
characteristics.text: 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).
characteristics.characteristic: description
characteristics.text: adult
characteristics.characteristic: developmental stage
characteristics.text: Rattus norvegicus
characteristics.characteristic: organism
characteristics.text: Rattus norvegicus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_10116
characteristics.characteristic: organism
characteristics.text: liver
characteristics.characteristic: organism part
characteristics.text: Rattus norvegicus
characteristics.characteristic: scientific_name
characteristics.text: liver-H3K4me3-SHR-male-bio4-tech1.bam
characteristics.characteristic: title