|
Status |
Public on Jun 23, 2024 |
Title |
Rela and Stat3 knockout untreated 2 |
Sample type |
SRA |
|
|
Source name |
Liver
|
Organism |
Mus musculus |
Characteristics |
tissue: Liver strain background: C57BL/6 genotype: Rela and Stat3 knockout 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 |
SAMN37405130 |
SRA |
SRX21785311 |