|
| Status |
Public on May 31, 2011 |
| Title |
RA patient 9 BMMC |
| Sample type |
RNA |
| |
|
| Source name |
bone marrow-derived mononuclear cells from RA patient
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 73
disease: rheumatoid arthritis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
|
| |
|
| Hybridization protocol |
15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000.
|
| Description |
RA-9
|
| Data processing |
The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
|
| |
|
| Submission date |
Feb 17, 2011 |
| Last update date |
Jun 01, 2011 |
| Contact name |
Norihiro Nishimoto |
| E-mail(s) |
[email protected]
|
| Phone |
+81-72-646-8039
|
| Fax |
+81-72-646-8140
|
| Organization name |
Wakayama Medical University
|
| Lab |
Laboratory of Immune Regulation
|
| Street address |
7-7-20, Saito-Asagi
|
| City |
Ibaraki |
| State/province |
Osaka |
| ZIP/Postal code |
567-0085 |
| Country |
Japan |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE27390 |
Human bone marrow-derived mononuclear cells (BMMC): rheumatoid arthritis vs. osteoarthritis |
|
