NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM372123 Query DataSets for GSM372123
Status Public on Feb 17, 2010
Title CIS 2
Sample type RNA
 
Source name PBMC
Organism Homo sapiens
Characteristics disease state: clinically isolated syndrome
cell type: PBMC
age: 25 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 6.04886
117_at 6.23248
121_at 6.65585
1255_g_at 2.83101
1294_at 8.13398
1316_at 4.62439
1320_at 3.61132
1405_i_at 10.2978
1431_at 3.20228
1438_at 4.14059
1487_at 6.39385
1494_f_at 3.4287
1598_g_at 6.96165
160020_at 6.22847
1729_at 8.15449
1773_at 5.29139
177_at 3.93062
179_at 7.19013
1861_at 4.89763

Total number of rows: 22215

Table truncated, full table size 408 Kbytes.




Supplementary file Size Download File type/resource
GSM372123.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap