|
| Status |
Public on Jun 09, 2011 |
| Title |
NOD.LP.SFBneg-3 |
| Sample type |
RNA |
| |
|
| Source name |
Prep from the small intestinal lamina propria of 6 wk old female NOD mice from our NRB colony. Sorted on CD45+CD4+TCRb+CD8a-CD11b-CD11c-B220-GR1-CD19-. Used CBDM lab protocol. Typed SFB negative (NRB75.F).
|
| Organism |
Mus musculus |
| Characteristics |
strain: NOD (NOD/ShiLtJ)
age: 6 wks
number of mice per chip: 1 female
tissue: small intestinal lamina propria (cell isolation adapted from Sun et al J. Exp. Med. 2007).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA isolated with Trizol reagent and amplified twice with the MessageAmp aRNA Kit (Ambion)
|
| Label |
Biotin
|
| Label protocol |
Biotin
|
| |
|
| Hybridization protocol |
Biotin-labeled cRNA was fragmented and hybridized to the array in a cocktail containing control oligos at 45°C for 16 hours, rotated at 60rpm, in the Affymetrix GeneChip Hybridization Oven 640. After hybridization, the arrays were automatically cycled through buffer washes and stained with streptavidin R-phycoerythrin conjugate (Invitrogen) in the Affymetrix GeneChip Fluidics Station 400 (EukGE-WS2v4 protocol).
|
| Scan protocol |
After staining and washing, the arrays were scanned in the Affymetrix GeneChip Scanner 3000 using the Affymetrix GCOS (GeneChip Operating Software) to automatically generate .CEL files.
|
| Description |
EA07068_116172_MOGENE.CEL
|
| Data processing |
Raw data were preprocessed with the RMA algorithm in GenePattern, and averaged expression values were used for analysis.
|
| |
|
| Submission date |
Jun 08, 2011 |
| Last update date |
Jun 09, 2011 |
| Contact name |
CBDM Lab |
| E-mail(s) |
cbdm@hms.harvard.edu
|
| Phone |
617-432-7747
|
| Organization name |
Harvard Medical School
|
| Department |
Microbiology and Immunobiology
|
| Lab |
CBDM
|
| Street address |
77 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE29806 |
Naturally transmitted segmented filamentous bacteria segregate with diabetes protection in NOD mice |
|
