characteristics.text: SAMN26111943
characteristics.characteristic: External Id
characteristics.text: SCK-CEN
characteristics.characteristic: INSDC center name
characteristics.text: 2023-03-31T00:51:49.337Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-03-31T00:51:49.337Z
characteristics.characteristic: INSDC last update
characteristics.text: SRS12058027
characteristics.characteristic: INSDC secondary accession
characteristics.text: live
characteristics.characteristic: INSDC status
characteristics.text: Model organism or animal
characteristics.characteristic: NCBI submission model
characteristics.text: Model.organism.animal.1.0
characteristics.characteristic: NCBI submission package
characteristics.text: SRS12058027
characteristics.characteristic: SRA accession
characteristics.text: DNA was extracted from 200 L frozen blood pellets using QIAamp DNA mini kit (Qiagen, Germany) according to kit protocol. To increase the efficiency of DNA extraction, phenol/chloroform/isoamyl alcohol mixture (25:24:1 PCI) was incorporated into the DNA extraction protocol. Briefly, after sample thawing, samples were incubated with proteinase K and buffer AL at 56C for 10 minutes. Then, 700 L PCI was added per sample and mixed for 1.5 hours at 1400 rpm at room temperature (Eppendorf Thermomixer C, Eppendorf AG, Germany). After which, centrifugation for 5 minutes at 14000 g was performed. Then, the upper aqueous layer containing the DNA was separated and 1 -1.5 mL 100% ethanol and 50 L buffer AL were added to precipitate the DNA. Then, this mixture was transferred to QIAamp DNA mini kit column in 700 L aliquots. Extraction was continued using QIAamp DNA mini kit manufacturer recommendations. Library preparation and sequencing were performed in collaboration with the Ghent University sequencing facility NXTGNT(Ghent, Belgium) and GENEWIZ global genomics service company (GENEWIZ Germany GmbH, Leipzig, Germany). Library preparation, probe-based target enrichment, bisulfite treatment, and library indexing PCR was performed according to SureSelectXT Methyl-Seq Library Preparation kit (Agilent Technologies Inc., USA) protocol (Version E0, April 2018). The libraries were then equimolarly pooled and sequenced together with a 20% PhiX control spike-in v3 (Illumina) on Illumina Hiseq 4000, generating approximately 1.2E+09 paired-end reads of 150 basepairs length.
characteristics.characteristic: description
characteristics.text: 7 month post ShamIrradiation rep 3
characteristics.characteristic: dev_stage
characteristics.text: Rattus norvegicus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_10116
characteristics.characteristic: organism
characteristics.text: female
characteristics.characteristic: sex
characteristics.text: Wistar
characteristics.characteristic: strain
characteristics.text: whole blood
characteristics.characteristic: tissue
characteristics.text: sham-irradiated control (7 months)
characteristics.characteristic: title