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Sample GSM8224551 Query DataSets for GSM8224551
Status Public on Sep 18, 2024
Title mouse kidney_rhabdomyolysis_24h_2
Sample type SRA
 
Source name kidney
Organism Mus musculus
Characteristics tissue: kidney
genotype: WT
treatment: rhabdomyolysis
Treatment protocol In order to induce RIAKI, drinking water was withheld for 19 hours, followed by IM injection of either 50% glycerol (0.05 ml per 10 g body weight; N= 10) or saline (sham controls; N= 10) into the left hind limb under isoflurane anesthesia. For pain management, Rimadyl© (5 mg/kg body weight i.p.) was administered at 0 h and 3 h. At 24 h, blood was obtained from the mandibular venous plexus. Mice were euthanized by cervical dislocation, and kidneys were snap frozen or immersion-fixed in 4 % paraformaldehyde for 24 hours.
Extracted molecule total RNA
Extraction protocol RNA extraction from frozen kidney samples was performed using RNA-STAT-60 (Tel-Test, Inc. USA) according to the manufacturer's instructions followed by cDNA synthesis with random primers and Superscript II reverse transcriptase (Thermo Fisher Scientific Inc., USA).
QIAseq UPX 3’ Transcriptome Kit (QIAGEN) according to the manufacturers instruction
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description C21
Data processing Raw data was de-multiplexed and FASTQ files for each sample were generated using the bcl2fastq2 software (Illumina inc.). The “Demultiplex QIAseq UPX 3’ reads” tool of the CLC Genomics Workbench 20.0.4 was used to demultiplex the raw sequencing reads according to the sample indices. The “Quantify QIAseq UPX 3’ workflow” was used to process the demultiplexed sequencing reads with default settings. The reads were then mapped to the mMouse genome GRCm38 v. 80 and annotated using the ENSEMBL GRCm38 v. 86 mRNA annotation.
Assembly: GRCm38 v. 80
Supplementary files format and content: xlsx file, includes counts
 
Submission date Apr 23, 2024
Last update date Sep 18, 2024
Contact name Robert Labes
E-mail(s) robert.labes@charite.de
Organization name Charité - Universitätsmedizin Berlin
Department Institute of Translational Physiology
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
 
Platform ID GPL19057
Series (1)
GSE264651 Transcriptomic analysis of rhabdomyolysis induced kidney injury
Relations
BioSample SAMN41059483
SRA SRX24344726

Supplementary file Size Download File type/resource
GSM8224551_C21.xlsx 5.1 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA

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