|
| Status |
Public on Jan 10, 2012 |
| Title |
BDC/NOD DP 1h 5nM replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
BDC/NOD DP 1h 5nM_BDC mimotope-loaded TCRa-/- splenocytes stimulation
|
| Organism |
Mus musculus |
| Characteristics |
background strain: NOD.H2b
genotype/variation: BDC2.5 TCR tg, Rag-/-, H2b
gender: male
age: 6-7 weeks
isolation: double sort as Thy1.2+Dump-CD4+CD8+CD45.1+ (NOD) or CD45.2+ (B6)
|
| Treatment protocol |
B6/NOD thymocytes mixed-stimulation with BDCmimotope-loaded TCRa-/- splenocytes for 1, 3 or 7h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA by Trizol method
|
| Label |
biotin
|
| Label protocol |
standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
standard Affymetrix protocol
|
| Scan protocol |
standard Affymetrix protocol
|
| Description |
DP.BDC.NOD.1h.5nM#1
|
| Data processing |
The datasets was pre-filtered to keep only those probesets for which a gene symbol could be found in the Affymetrix annotation. CEL files were normalized using Affymetrix Power Tools on the predefined probeset id list mentioned above, and using the standard RMA workflow (background adjustment, quantile normalization, median polish probeset summarization).
|
| |
|
| Submission date |
Jan 09, 2012 |
| Last update date |
Jan 10, 2012 |
| Contact name |
CBDM Lab |
| E-mail(s) |
[email protected]
|
| 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 (2) |
| GSE34934 |
Expression data from BDC2.5 TCR Tg, preselected Rag-/-.B6 and Rag-/-.NOD.H2b thymocytes upon antigenic stimulation |
| GSE34936 |
NOD genetic variation influences ab/gd lineage decisions when TCRa is prematurely expressed, but not the process of negative selection. |
|
