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Sample GSM381200 Query DataSets for GSM381200
Status Public on Sep 14, 2009
Title NSG011
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): 5.39
disease activity (das28_v3): 5.23
response to anti-tnf therapy: NORESPONSE
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 2.536218442
1053_at 5.314602086
117_at 8.716893375
121_at 2.342446544
1255_g_at 2.328093597
1294_at 7.761738197
1316_at 3.137680851
1320_at 2.376819073
1405_i_at 9.369554275
1431_at 2.396932787
1438_at 2.311500284
1487_at 6.678088131
1494_f_at 2.32146527
1552256_a_at 2.427865375
1552257_a_at 6.62123423
1552258_at 2.490412516
1552261_at 2.381960283
1552263_at 7.881320933
1552264_a_at 8.566840307
1552266_at 2.391806694

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM381200.CEL.gz 4.4 Mb (ftp)(http) CEL
Processed data included within Sample table

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