|
| Status |
Public on Aug 13, 2015 |
| Title |
Clostridium difficile response in cecum of Bt-monoassociated mice fed standard, polysaccharide rich diet 1 |
| Sample type |
RNA |
| |
|
| Source name |
bacterial
|
| Organism |
Clostridioides difficile |
| Characteristics |
strain: Strain 630
tissue: cecum of Bt-monoassociated mice fed standard, polysaccharide rich diet
|
| Treatment protocol |
Qiagen RNA protect
|
| Growth protocol |
Inoulation into germ-free mice. Cecal contents were removed and kept at -80C before extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen Rneasy mini column extraction, Ambion DNA free treatment
|
| Label |
Biotin
|
| Label protocol |
Enzo Biochemicals Bioarray terminal labeling kit
|
| |
|
| Hybridization protocol |
standard Affymetrix protocol
|
| Scan protocol |
standard Affymetrix protocol
|
| Description |
BCWfrag5-JF5.CEL
|
| Data processing |
The raw data were RMA-MS normalized using R-2.9.1. and log2 transformed, excluding other species present on chip.
|
| |
|
| Submission date |
Aug 26, 2014 |
| Last update date |
Aug 13, 2015 |
| Contact name |
Justin L Sonnenburg |
| E-mail(s) |
jsonnenburg@stanford.edu
|
| Phone |
(650) 721-2961
|
| Organization name |
Stanford University
|
| Department |
Microbiology and Immunology
|
| Lab |
Justin Sonnenburg lab
|
| Street address |
Fairchild D315
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL19121 |
| Series (1) |
| GSE60751 |
The in vivo responses elicited by Clostridium difficile in response to the gut commensal B. thetaiotaomicron and diet |
|
