|
| Status |
Public on Jun 24, 2012 |
| Title |
Chronic plaque 1 (CP1) |
| Sample type |
RNA |
| |
|
| Source name |
MS brain lesion (after inflammation has subsided -late stage)
|
| Organism |
Homo sapiens |
| Characteristics |
histology: chronic plaque
disease state: multiple sclerosis after inflammation has subsided-late stage
tissue: multiple sclerosis brain lesion
|
| Treatment protocol |
MS brain lesions were characterized histologically according to disease activity as AP (active plaque), CAP (chronic active plaque), CP (chronic plaque). Control brain samples were analyzed to rule out neurological disorders.
|
| Growth protocol |
Fresh-frozen autopsy brain samples from MS and control subjects were studied
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from MS and control brain samples were extracted utilizing RNAEasy kit from Qiagen.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 3-5 ug total RNA (3'IVT protocol from Affymatrix ).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 2.0 array (Affymatrix). GeneChips were washed and stained in the GeneChip Hybridization Oven 640.
|
| Scan protocol |
GeneChips were scanned using the Affymatrix Genechip Scanner 3000 7G.
|
| Description |
Fresh-frozen autopsy brain samples
Gene expression data from chronic MS brain lesions - after inflammation has subsided and gliosis has set in
|
| Data processing |
The data were analyzed with Affymatrix Gene Expression Console using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| |
|
| Submission date |
May 16, 2012 |
| Last update date |
Jun 24, 2012 |
| Contact name |
May Han |
| E-mail(s) |
[email protected]
|
| Phone |
650-721-5737
|
| Organization name |
Stanford University
|
| Street address |
1201 Welch Road
|
| City |
Stanford |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE38010 |
Janus-Like Opposing Roles of CD47 in Autoimmune Brain Inflammation in Human and Mice |
|
