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Sample GSM189718 Query DataSets for GSM189718
Status Public on May 25, 2007
Title SVGR2 subclone 4-E12 GeneChip U133B
Sample type RNA
 
Source name SVGR2 glial cells
Organism Homo sapiens
Characteristics VGR2 cells are glial cells which are derived from SVG-A cells. They were created by subjecting SVG-A cells to multiple rounds of lytic infection by the human polyomavirus JCV. SVGR2 cells are the cells that survived this process and are resistant to JCV infection
Treatment protocol Cells were left at 100% confluency before RNA was harvested.
Growth protocol Cells were cultured in supplemented with 10% fetal calf serum (Mediatech, Inc.) and maintained in a humidified 37°C CO2 incubator.
Extracted molecule total RNA
Extraction protocol Extraction of total RNA was performed using the Qiagen Rneasy midi kit 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 Human 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 Gene expression data from SVGR2 glial cells.
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.
 
Submission date May 16, 2007
Last update date May 16, 2007
Contact name Kate Manley
Organization name Brown University
Street address 70 Ship St.
City Providence
State/province RI
ZIP/Postal code 02903
Country USA
 
Platform ID GPL97
Series (1)
GSE7819 Comparison of gene expression in SVG-A glial cells and SVGR2 glial cells

Data table header descriptions
ID_REF
VALUE MAS5
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
200000_s_at 12006.1 P 0.000244
200001_at 14289.7 P 0.000732
200002_at 55614 P 0.000244
200003_s_at 56924.1 P 0.000244
200004_at 18237.3 P 0.000244
200005_at 13405.4 P 0.000244
200006_at 24117 P 0.000244
200007_at 24480.3 P 0.000244
200008_s_at 10472.1 P 0.000244
200009_at 22197.6 P 0.000244
200010_at 56275.1 P 0.000244
200011_s_at 4213.6 P 0.000244
200012_x_at 48828.9 P 0.000244
200013_at 54068.8 P 0.000244
200014_s_at 6248.5 P 0.000244
200015_s_at 3613.5 P 0.000732
200016_x_at 46803.5 P 0.000244
200017_at 62052.6 P 0.000244
200018_at 51701.6 P 0.000244
200019_s_at 58390.3 P 0.000244

Total number of rows: 22645

Table truncated, full table size 591 Kbytes.




Supplementary file Size Download File type/resource
GSM189718.CEL.gz 3.2 Mb (ftp)(http) CEL
GSM189718.CHP.gz 5.1 Mb (ftp)(http) CHP
GSM189718.EXP.gz 589 b (ftp)(http) EXP
Processed data included within Sample table
Processed data provided as supplementary file

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