NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM6165198 Query DataSets for GSM6165198
Status Public on May 15, 2024
Title AOMS [7361CIS151]
Sample type RNA
 
Source name PBMC from AOMS
Organism Homo sapiens
Characteristics gender: Female
age (years): 22
Treatment protocol PBMC were purified from Ficoll hypaque gradient (Invitrogen, USA)
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description PBMC gene expression from AOMS patients
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Following scanning of the arrays, the microarray raw data were initially normalized by R Bioconductor Packages, all arrays were normalized serially using a single sample microarray normalization approach designed for personal medicine workflows (SCAN Normalization). An empirical Bayes approach (ComBat algorithm) was used to minimize the batch effect in the data
 
Submission date May 18, 2022
Last update date May 15, 2024
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)
GSE203241 Age-related blood transcriptional regulators affect disease progression in pediatric multiple sclerosis

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
1007_s_at 0.527995
1053_at 0.519908
117_at 0.634808
121_at 0.480525
1255_g_at -0.176645
1294_at 1.10746
1316_at 0.247652
1320_at -0.159638
1405_i_at 2.34594
1431_at -0.132139
1438_at -0.174428
1487_at 0.697595
1494_f_at -0.0548449
1598_g_at 0.316624
160020_at 0.543981
1729_at 1.13933
177_at -0.0857207
1773_at 0.079384
179_at 0.492012
1861_at 0.0834389

Total number of rows: 22277

Table truncated, full table size 438 Kbytes.




Supplementary file Size Download File type/resource
GSM6165198_7361CIS151.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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