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Sample GSM381208 Query DataSets for GSM381208
Status Public on Sep 14, 2009
Title NSG025
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): 5.1
disease activity (das28_v3): 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) [email protected]
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

Data table header descriptions
ID_REF
VALUE GCRMA-processed data

Data table
ID_REF VALUE
1007_s_at 2.37140199
1053_at 5.211767207
117_at 8.786119555
121_at 2.338212782
1255_g_at 2.324828665
1294_at 7.253915813
1316_at 3.140397829
1320_at 2.374449097
1405_i_at 9.419962188
1431_at 2.384554732
1438_at 2.30850771
1487_at 5.253485519
1494_f_at 2.317273603
1552256_a_at 2.346752368
1552257_a_at 5.184482861
1552258_at 2.481023487
1552261_at 2.37765842
1552263_at 6.73278637
1552264_a_at 7.908889834
1552266_at 2.484600667

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM381208.CEL.gz 4.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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