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Sample GSM372125 Query DataSets for GSM372125
Status Public on Feb 17, 2010
Title CIS 3
Sample type RNA
 
Source name PBMC
Organism Homo sapiens
Characteristics disease state: clinically isolated syndrome
cell type: PBMC
age: 28 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 set34
Data processing Data analysis was performed by Partek Genomics Solution software (www.partek.com ). 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
E-mail(s) Michael.Gurevich@sheba.health.gov.il
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
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
1007_s_at 5.42559
1053_at 6.00926
117_at 7.33404
121_at 6.56851
1255_g_at 2.75699
1294_at 8.11057
1316_at 4.62439
1320_at 3.26728
1405_i_at 11.242
1431_at 3.1655
1438_at 4.0047
1487_at 6.24096
1494_f_at 3.96539
1598_g_at 6.82717
160020_at 5.97706
1729_at 7.94706
1773_at 5.73947
177_at 3.93062
179_at 7.08326
1861_at 5.06904

Total number of rows: 22215

Table truncated, full table size 407 Kbytes.




Supplementary file Size Download File type/resource
GSM372125.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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