|
| Status |
Public on Feb 01, 2019 |
| Title |
Tissue NODDQ8 clean SPF colonized P.aeruginosa LasB gliadin 1 |
| Sample type |
RNA |
| |
|
| Source name |
Small intestine_Tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: NODDQ8
status: clean
colonized: colonized P.aeruginosa LasB
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extractions were conducted with the RNeasy Mini Kit (Qiagen, Toronto, Canada) according to the manufacturer’s instructions. DNase digestion during purification was carried out using the RNase-free DNase (Qiagen).
|
| Label |
color-coded barcode technology
|
| Label protocol |
The protocol followed was according to manufacturer's intructions
|
| |
|
| Hybridization protocol |
The protocol followed was according to manufacturer's intructions
|
| Scan protocol |
Sample Cartridges are placed in the Digital Analyzer for data collection. Color codes on the surface of the cartridge are counted and tabulated for each target molecule
|
| Description |
Tissue from clean specific pathogen free (SPF- derivated of Altered Schaedler flora) Non-obese diabetic mouse expresing human HLA-DQ8 (NOD/DQ8, 10-12 weeks) colonized with P.aeruginosa PA14 disrupted in LasB gene. Mice were sensitized with gluten and cholera toxin for 3 weeks (1 time a week) and challenged with gluten 3 times a week for 3 weeks.
|
| Data processing |
After collection, the RCC files that were generated by the digital analyzer and contained the counts of each samples were imported into the nSolver software fo further anlysis. After checking the quality scores for each sample, a Positive Control Normalization and a Reference (Housekeeping) Gene Normalization. was performed for each sample.
|
| |
|
| Submission date |
Jan 31, 2019 |
| Last update date |
Feb 01, 2019 |
| Contact name |
Alberto Caminero |
| E-mail(s) |
acamine@mcmaster.ca
|
| Organization name |
McMaster University
|
| Street address |
1280 Main St W
|
| City |
Hamilton |
| State/province |
ON |
| ZIP/Postal code |
L8S 4L8 |
| Country |
Canada |
| |
|
| Platform ID |
GPL26138 |
| Series (1) |
| GSE125983 |
Gene expression in the small intestine of mice colonized with Pseudomonas aeruginosa |
|
