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Sample GSM7818375 Query DataSets for GSM7818375
Status Public on Nov 16, 2023
Title 1008064_day -1
Sample type SRA
 
Source name Plasma
Organism Sus scrofa
Characteristics tissue: Plasma
timepoint: day -1
radiation dose: 2.2 Gy Total body irradiation
sample: 1008064
Extracted molecule total RNA
Extraction protocol Blood samples were taken from the animals and centrifuged to obtain plasma
TruSeq small RNA Sample Preparation kit was used for library construction
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina NextSeq 500
 
Data processing Illumina NextSeq 500 generated BCL files that were converted to FastQ files
FastQ files were demultiplexed using bcl2fastq2
Reads were quality filtered and adapter trimmed in silico using Cutadapt
miRDeep2 was used to generate miRNA expression count data
Data was normalized to CPM values using TMM normalization
Assembly: Sus scrofa reference genome assembly using Bowtie v2.2.3.0
Supplementary files format and content: Text file with miRNA count data
 
Submission date Oct 02, 2023
Last update date Nov 16, 2023
Contact name Aarti Gautam
E-mail(s) aarti.gautam.civ@health.mil
Phone 301-619-7683
Organization name WRAIR
Department Medical Readiness Systems Biology
Street address 503 Robert Grant Avenue
City Silver Spring
State/province MD
ZIP/Postal code 20910
Country USA
 
Platform ID GPL20983
Series (1)
GSE244507 Early to Sustained Impacts of Lethal Radiation on Circulating miRNAs in a Minipig Model
Relations
BioSample SAMN37650371
SRA SRX21970404

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA

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