|
| Status |
Public on Sep 21, 2021 |
| Title |
Western diet-fed SIRT1 LKO x AAV8-NAMPT3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57B/6J
tissue: Liver
age: 20wk
|
| Treatment protocol |
Mice were injected with AAV8 encoding empty vector or SIRT1
|
| Growth protocol |
Littermate WT and SIRT LKO mice were grown to adulthood ~8wks of age
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol reagent was used to isolate total RNA, performed exactly per manufacturer protocol on 50-100mg liver tissue homogenate
oligo-dT
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Basecalling with Illumina RTA 1.9
Demultiplexing with Illumina bcl2fastq2
Fastq files were combined and aligned with STAR 2.5.1a
Gene counts quantitated with Subread:featureCount 1.4.6-p5 with CPM and RPKM transformations added with custom Rscripting.
Genome_build: Ensembl GRCm38.76
Supplementary_files_format_and_content: Gene counts with CPM and RPKM in tab-delimitted text format
|
| |
|
| Submission date |
Sep 18, 2021 |
| Last update date |
Sep 21, 2021 |
| Contact name |
Brian DeBosch |
| E-mail(s) |
deboschb@wustl.edu
|
| Phone |
314-747-2692
|
| Organization name |
Washington University School of Medicine
|
| Department |
Pediatrics and Cell Biology & Physiology
|
| Lab |
Brian DeBosch
|
| Street address |
660 South Euclid Avenue
|
| City |
St. Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE184394 |
Role of SIRT1 in NAMPT-induced liver gene expression |
|
| Relations |
| BioSample |
SAMN21502436 |
| SRA |
SRX12252645 |
