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Sample GSM1617965 Query DataSets for GSM1617965
Status Public on Feb 25, 2015
Title G8_40
Sample type SRA
 
Source name heart
Organism Homo sapiens
Characteristics tissue: heart; right atrial appendage
oxygen percentage: 40
Sex: M
age: 56
Treatment protocol After induction of anesthesia and intubation of the trachea, patients were randomly allocated to receive either 40% or > 96% oxygen for 60 minutes.
Growth protocol tissue sample from the right atrial appendage
Extracted molecule total RNA
Extraction protocol RNALater and mirVana miRNA Isolation Kit
RNA was amplified with Ovation RNA-Seq System V2 Kit (NuGen, Emeryville, CA, USA) and the output double stranded DNA was used to prepare SOLiD 5500 W System DNA fragment library according to manufacturer’s protocols (Thermo Fisher Scientific Inc, Waltham, MA, USA). The barcoding primers in library preparation and fragment sequencing chemistry was applied (75 bp in forward directions). In case of 12 samples per flowchip lane approximately 33 million mappable reads were expected per one sample, which would be enough for successful whole transcriptome expression pattern analysis.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model AB 5500xl Genetic Analyzer
 
Data processing Color-space base calling
Mapping, alignment with Lifescope
Lifescope transcriptome workflow
Genome_build: hg19
Supplementary_files_format_and_content: counts data
 
Submission date Feb 24, 2015
Last update date May 15, 2019
Contact name Sulev Koks
E-mail(s) sulev.koks@murdoch.edu.au
Phone +61864570313
Organization name Murdoch University
Department Centre for Molecular Medicine and Innovative Therapeutics
Street address 90 South Street
City Perth
State/province Western Australia
ZIP/Postal code 6150
Country Australia
 
Platform ID GPL16288
Series (1)
GSE66249 Exposure to 60 minutes of hyperoxia upregulates myocardial humanins in patients with coronary artery disease
Relations
BioSample SAMN03372080
SRA SRX889550

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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