|
| Status |
Public on Mar 01, 2024 |
| Title |
S2582 (floxed control) |
| Sample type |
SRA |
| |
|
| Source name |
kidney
|
| Organism |
Mus musculus |
| Characteristics |
tissue: kidney
strain background: mixed
Sex: male
genotype: floxed control
treatment: aged for 2 years
|
| Treatment protocol |
Mice were treated with doxycyline-containing food at aged 5-8 wks for a total of 3 weeks to induce recombination
|
| Growth protocol |
Mice were aged in a pathogen-free environment for 2 years.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolation performed with Qiagen Rneasy Kit plus DNAse step
Library prepared with Illumina TruSeq stranded mRNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Alignment was performed using STAR aligner, raw read counts were estimated using HTSeq and normalized using DESeq2 to get normalized counts. Read length 100/150
Aligned reads were used for estimating expression of genes using cufflinks (v2.2.1). Expression values reported in FPKM (fragments per kilobase per million units for each gene).
RNA sequencing and analysis were done by Medgenome.
Assembly: Alignmnet was performed using STAR v2.7.3a. Reads mapping to ribosomal and mitochondrial genome were removed before alignmnet.
Supplementary files format and content: Raw read counts of genes across sample and p values, adjusted for multiple comparison
|
| |
|
| Submission date |
Jun 05, 2022 |
| Last update date |
Mar 01, 2024 |
| Contact name |
Leslie Stuart Gewin |
| E-mail(s) |
gewin@wustl.edu
|
| Organization name |
Washington University in St. Louis
|
| Department |
Medicine (Nephrology)
|
| Lab |
Gewin
|
| Street address |
660 S Euclid Ave, McDonnell Science Building, Rm 718
|
| City |
St. Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE205497 |
Role of Tubular Cpt1a in Aging Murine Kidneys |
|
| Relations |
| BioSample |
SAMN28867569 |
| SRA |
SRX15601184 |
