|
| Status |
Public on Apr 05, 2024 |
| Title |
WT+WD-3 |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: liver
strain background: C57BL6
genotype: WT
treatment: WD
|
| Treatment protocol |
AAV-Null or AAV-TBG-cre was injected via tail vein, then mice were maintained on the same diet for additional 5 weeks
|
| Growth protocol |
Mice were fed CD or WD for 13 weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol was used to extract total liver RNA
Stranded RNA sequencing (RNAseq) libraries were constructed using Lexogen’s QuantSeq 3' mRNA-Seq Library Prep Kit FWD for Illumina and the established protocols. The library construction was done using 500 ng of total RNA. Each of the libraries was indexed during library construction to multiplex for sequencing. Samples were normalized, and the libraries were pooled and run on Illumina’s NovaSeq Platform
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Derived sequences were analyzed by applying a custom computational pipeline consisting of the open-source gSNAP, Cufflinks, and R forsequence alignmentand ascertainment ofdifferential gene expression.
reads generated were mapped to the mouse genome (mm10) by gSNAP,54expression (FPKM) was derived by Cufflinks
Assembly: mm10
Supplementary files format and content: excel
|
| |
|
| Submission date |
Apr 25, 2023 |
| Last update date |
Apr 05, 2024 |
| Contact name |
Tiangang Li |
| E-mail(s) |
tiangang-li@ouhsc.edu
|
| Organization name |
University of Oklahoma Health Sciences Center
|
| Street address |
975 NE 10th St
|
| City |
Oklahoma City |
| State/province |
OK |
| ZIP/Postal code |
73104 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE230518 |
Liver Cullin 3 knockout transcriptomics |
|
| Relations |
| BioSample |
SAMN34364918 |
| SRA |
SRX20094688 |
