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Sample GSM372105 Query DataSets for GSM372105
Status Public on Feb 17, 2010
Title MS2b 5
Sample type RNA
Source name PBMC
Organism Homo sapiens
Characteristics disease state: prior to onset of multiple sclerosis
cell type: PBMC
age: 20 years
gender: F
Treatment protocol Peripheral blood mononuclear cells (PBMC) were separated on ficoll-hypaque gradient
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the TRIzol Reagent (Invitrogen, Carlsbad, CA)
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA
Hybridization protocol cDNA was synthesized, labeled, hybridized to HG-U133A-2 array containing 22,215 gene-transcripts according to Affymetrix (Inc, Santa Clara, CA) protocol
Scan protocol Hewlett Packard, GeneArray-TM scanner G2500A
Description working set76
Data processing Data analysis was performed by Partek Genomics Solution software ( ). Expression values were computed from raw CEL files by applying the Robust Multi-Chip Average (RMA) background correction algorithm. The RMA correction included: 1) values background correction; 2) quantile normalization; 3) log2 transformation; 4) median polish summarization. In order to avoid the noise caused by variable set effects we normalized each set to pre-saved distribution pattern of a well balanced set used as a reference distribution.
Submission date Feb 18, 2009
Last update date Feb 19, 2009
Contact name Michael Gurevich
Organization name Sheba Medical Center
Department Multiple Sclerosis Center
Lab Neurogenomics and Neuroimmunology
Street address Tel Hashomer
City Ramat Gan
ZIP/Postal code 52621
Country Israel
Platform ID GPL571
Series (1)
GSE14895 The trait of MS: Altered transcription regulation of nuclear receptors networks operate in the pre-disease state

Data table header descriptions
VALUE RMA signal

Data table
1007_s_at 2.96755
1053_at 2.27164
117_at 2.97344
121_at 6.68078
1255_g_at 2.0709
1294_at 2.59033
1316_at 3.31043
1320_at 2.0788
1405_i_at 2.09906
1431_at 1.93218
1438_at 3.05724
1487_at 2.77748
1494_f_at 2.81634
1598_g_at 4.69955
160020_at 4.34016
1729_at 4.16012
1773_at 2.36132
177_at 2.40314
179_at 6.09339
1861_at 2.38582

Total number of rows: 22215

Table truncated, full table size 408 Kbytes.

Supplementary file Size Download File type/resource
GSM372105.CEL.gz 1.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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