|
| Status |
Public on Jun 23, 2024 |
| Title |
WT untreated 1 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
strain background: C57BL/6
genotype: wild type
treatment: Water
|
| Treatment protocol |
2% DSS was administered in water for a period of 6 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was performend using MN-NucleoSpin RNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The fastp tool was used to remove low qulaity reads and trimming the adapters.
Processed reads were mapped to reference genome (reference: mm9) using hisat2 tool.
Assembly and Quantification were done using stringtie. Further, DESeq2 used for the differential expression analysis.
Assembly: mm9
Supplementary files format and content: processed_count_file.csv
|
| |
|
| Submission date |
Sep 15, 2023 |
| Last update date |
Jun 23, 2024 |
| Contact name |
Debasisa Mohanty |
| E-mail(s) |
deb@nii.ac.in
|
| Organization name |
National Institute of Imunology
|
| Street address |
Aruna Asaf Ali Marg
|
| City |
New Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE243307 |
A hepatocyte-specific transcriptional program driven by Rela and Stat3 exacerbates experimental colitis in mice by modulating bile synthesis |
|
| Relations |
| BioSample |
SAMN37405137 |
| SRA |
SRX21785304 |
