|
| Status |
Public on Sep 14, 2009 |
| Title |
NSG404 |
| Sample type |
RNA |
| |
|
| Source name |
whole blood from rheumatoid arthritis patient treated with anti_TNF therapy
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: whole blood
disease state: rheumatoid arthritis
protocol: anti_TNF therapy
disease activity (das28_v1): 6.62
disease activity (das28_v3): 4.4
response to anti-tnf therapy: MEDIUM
|
| Biomaterial provider |
ABCON [Autoimmune Biomarkers Collaborative Network]
|
| Treatment protocol |
anti-TNF therapy
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from PaxGene tubes as per the manufacturer’s standard protocol.
|
| Label |
biotin
|
| Label protocol |
RNA was amplified, fragmented and labeled using FL Ovation cDNA biotin automated module V2 (cat #A4200, Nugen inc., San Carlos CA ) and FL Ovation cDNA biotin automated module V2 (cat #A4200, Nugen inc., San Carlos CA ) using Beckman Arrayplex automated workstation according to manufactures protocol
|
| |
|
| Hybridization protocol |
3 ug of fragmented and labeled cDNA was hybridized HGU-133 plus 2 arrays
|
| Scan protocol |
Genechip cartridge arrays using the Genechip Array Station (Affymetrix, Santa Clara, CA).
|
| Description |
no additional information
|
| Data processing |
Data was normalized with GCRMA and the proccessed using limma Bioconductor package
|
| |
|
| Submission date |
Mar 17, 2009 |
| Last update date |
Sep 14, 2009 |
| Contact name |
Jadwiga Bienkowska |
| E-mail(s) |
jbienkowska@gmail.com
|
| Phone |
6174602469
|
| Organization name |
BiogenIdec
|
| Street address |
45 Fayette Str Apt 3
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE15258 |
Whole blood transcript profiling of rheumatoid arthritis patients |
|
