|
| Status |
Public on Nov 11, 2022 |
| Title |
ischemic muscle, Leprdb/db, praliciguat [3892] |
| Sample type |
SRA |
| |
|
| Source name |
tibialis anterior muscle
|
| Organism |
Mus musculus |
| Characteristics |
tissue: tibialis anterior muscle
Sex: male
genotype: Leprdb/db
treatment: Hind limb ischemia
treatment: praliciguat
|
| Treatment protocol |
Praliciguat was formulated in chow to target the maximum observed plasma concentration (Cmax) expected with an oral dose of 10 mg/kg/day. Starting on Day -3 of the experiment (i.e., 3 days before HLI surgery), mice were randomized to be given ad libitum access to a control diet containing no praliciguat (D11112201; Research Diets, New Brunswick, NJ) or a diet containing 75 ppm praliciguat (D19121105, Research Diets, New Brunswick, NJ). Animals were maintained on their assigned diet for 31 days.
|
| Growth protocol |
Leprdb/db male mice underwent HLI surgery and were treated orally with praliciguat or placebo. Mice were sacrificed 28 days after surgery.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using Tri Reagent® as instructed by the manufacturer (Molecular Research Center Inc), from muscle tissue that had been snap-frozen in liquid nitrogen and homogenized.
Libraries were prepared from the extracted RNA using the KAPA Stranded mRNA-Seq Kit from ROCHE
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Quality of raw data has been evaluated with FastQC
Poor quality sequences has been trimmed or removed with Trimmomatic software to retain only good quality paired reads with following parameters : cutoff: '20' leading: '10' minlen: '50' slidingwindow: '4' trailing: '10'
Star v2.5.3a has been used to align reads on reference genome using standard options
Quantification of gene and isoform abundances has been done with rsem 1.2.28
Assembly: mm10
Supplementary files format and content: tab-delimited text files including expecting counts, TPM and FPKM of genes
|
| |
|
| Submission date |
Nov 08, 2022 |
| Last update date |
Nov 12, 2022 |
| Contact name |
Marie-Ange Renault |
| E-mail(s) |
marie-ange.renault@inserm.fr
|
| Organization name |
Inserm U1034
|
| Street address |
1 avenue de Magellan
|
| City |
Pessac |
| ZIP/Postal code |
33600 |
| Country |
France |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE217514 |
The soluble guanylate cyclase stimulator praliciguat promotes ischemic leg reperfusion in leptin receptor-deficient mice |
|
| Relations |
| BioSample |
SAMN31656368 |
| SRA |
SRX18205169 |
