characteristics.text: SAMN26111933
characteristics.characteristic: External Id
characteristics.text: SCK-CEN
characteristics.characteristic: INSDC center name
characteristics.text: 2023-03-31T00:50:18.067Z
characteristics.characteristic: INSDC first public
characteristics.text: 2023-03-31T00:50:18.067Z
characteristics.characteristic: INSDC last update
characteristics.text: SRS12058026
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: SRS12058026
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, 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: 1.5 month post ShamIrradiation rep 1
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 (1.5 months)
characteristics.characteristic: title