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Sample GSM2897955 Query DataSets for GSM2897955
Status Public on May 01, 2018
Title Adult rep2
Sample type SRA
 
Source name heart - left ventricle
Organism Cavia porcellus
Characteristics strain/background: Dunkin Hartley
age: Adult, non-pregnant
tissue: heart, left ventricle
Treatment protocol No treatment.
Growth protocol Adult male and female guinea pigs (Dunkin Hartley; Envigo UK) were housed under standard 12 hour day/night cycles and fed ad libitum. Non-pregnant and time-mated term (day 66-67) pregnant guinea pigs were killed by anesthetic overdose.
Extracted molecule total RNA
Extraction protocol Hearts isolated from the animals were immediately flushed with excess cardioplegic solution (glucose 227.5mM, mannitol 34.5mM, KCl 30mM, NaHCO3 25mM, pH 7.4) by retrograde perfusion via the aorta to clear all blood. The left ventricular walls were dissected out, frozen in liquid nitrogen and tissues stored until use at -80degC. Total RNA was extracted using RNeasy Fibrous Tissue Mini Kit (Qiagen Ltd., Crawley, UK) according to the manufacturer’s instructions.
RNA libraries were prepared for sequencing with standard Illumina protocols using TruSeq Stranded Total RNA Library Prep Kit with Ribo-Zero Gold, Illumina.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description 120NP
Data processing Alignment: start 2.5.2b
Normalised abundance: DESeq2
Genome_build: cavPor3
Supplementary_files_format_and_content: *.counts.txt: Tab-delimited ASCII file.
Supplementary_files_format_and_content: normalisedcounts.csv: Comma-separated text file includes normalised counts.
 
Submission date Dec 21, 2017
Last update date May 01, 2018
Contact name Aurora Gomez-Duran
Organization name Cambridge University
Department Department of Clinical Neurosciences
Lab Mitochondrial Biology Unit
Street address Welcome Trust/MRC Building
City Cambridge
State/province Cambridge
ZIP/Postal code CB2 0XY
Country United Kingdom
 
Platform ID GPL22346
Series (1)
GSE108420 Transcriptomics analysis of guinea pig heart, fetus to adult progression
Relations
BioSample SAMN08225643
SRA SRX3504110

Supplementary file Size Download File type/resource
GSM2897955_120NP.counts.txt.gz 94.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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