|
| Status |
Public on Aug 04, 2021 |
| Title |
TNBS_Colon_Sample_2 |
| Sample type |
SRA |
| |
|
| Source name |
Vehicle-treated mouse during TNBS-induced colitis
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
Sex: Male
age: 11 weeks old
treatment: vehicle
|
| Treatment protocol |
Colon was isolated from vehicle or propyzamide treated mice, 3 days after TNBS-induction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
A piece of colon was flash frozen and later disrupted in Trizol (Invitrogen). RNA was extracted following manufacturer’s instructions and eluted in water.
Libraries were prepared by the Broad Institute according to the SMARTseq 2 protocol as described (Trombetta et al 2014).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
The sample is aligned to GRCm38 transcriptome using RSEM.
Genome_build: GRCm38
Supplementary_files_format_and_content: Zipped Kallisto alignment/quantification software output including txt format with transcripts ID and abundance
|
| |
|
| Submission date |
May 28, 2021 |
| Last update date |
Aug 04, 2021 |
| Contact name |
Zhaorong Li |
| E-mail(s) |
zhaorong@bu.edu
|
| Organization name |
Brigham and Women's Hospital
|
| Street address |
60 Fenwood Road
|
| City |
Boston |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE175766 |
RNAseq analysis of the herbicide propyzamide on a pre-clinical model of IBD |
|
| Relations |
| BioSample |
SAMN19406422 |
| SRA |
SRX11017754 |
