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Sample GSM381273 Query DataSets for GSM381273
Status Public on Sep 14, 2009
Title PNS054
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): 6.03
disease activity (das28_v3): 3.26
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 2.376057095
1053_at 5.136478415
117_at 8.635888794
121_at 2.356811614
1255_g_at 2.327100304
1294_at 5.931171263
1316_at 3.25261414
1320_at 2.374447453
1405_i_at 8.660298146
1431_at 2.394979121
1438_at 2.310024484
1487_at 6.052451282
1494_f_at 2.369647616
1552256_a_at 2.345280152
1552257_a_at 6.383576243
1552258_at 2.50216355
1552261_at 2.40446268
1552263_at 7.397203759
1552264_a_at 8.245935027
1552266_at 2.569913344

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM381273.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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