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Sample GSM146779 Query DataSets for GSM146779
Status Public on Nov 23, 2006
Title Stage 1, PT#2, Tumor (HG-U133A)
Sample type RNA
Source name Human Renal Epithelium
Organism Homo sapiens
Characteristics Tumor, PT#2, STG1
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 accordiing to the standard Affymetrix protocol from 8.4 ug of total RNA
Hybridization protocol Follow fragmentation, 10ug of cRNA were hybridized for 16 hrs at 45C on HG U133A and HG U133B 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 Tumor HRE
Data processing The data were analyzed with GCOS 1.2 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500
Submission date Nov 22, 2006
Last update date Nov 22, 2006
Contact name John A Copland
Organization name Mayo Clinic College of Medicine
Department Biochemistry & Molecular Biology
Street address 4500 San Pablo Road
City Jacksonville
State/province FL
ZIP/Postal code 32224
Country USA
Platform ID GPL96
Series (1)
GSE6344 Gene expression in Stage 1,2 Normal and Tumor kidney cancer

Data table header descriptions
VALUE MAS5-calculated Signal intensity

Data table
AFFX-BioB-5_at 383.1 P 0.001248
AFFX-BioB-M_at 580.9 P 4.40E-05
AFFX-BioB-3_at 332.6 P 0.000857
AFFX-BioC-5_at 1121.5 P 0.00011
AFFX-BioC-3_at 862.6 P 9.50E-05
AFFX-BioDn-5_at 903.5 P 6.00E-05
AFFX-BioDn-3_at 5790.3 P 7.00E-05
AFFX-CreX-5_at 10205.9 P 4.40E-05
AFFX-CreX-3_at 13821.2 P 4.40E-05
AFFX-DapX-5_at 45.5 P 0.046482
AFFX-DapX-M_at 87.5 A 0.078002
AFFX-DapX-3_at 73.7 A 0.313723
AFFX-LysX-5_at 2803.1 P 4.40E-05
AFFX-LysX-M_at 5264.8 P 4.40E-05
AFFX-LysX-3_at 8054.5 P 4.40E-05
AFFX-PheX-5_at 7770.8 P 4.40E-05
AFFX-PheX-M_at 11102.3 P 4.40E-05
AFFX-PheX-3_at 14580.1 P 4.40E-05
AFFX-ThrX-5_at 211.7 P 0.000581
AFFX-ThrX-M_at 344.2 P 0.000169

Total number of rows: 22283

Table truncated, full table size 593 Kbytes.

Supplementary file Size Download File type/resource
GSM146779.CEL.gz 3.3 Mb (ftp)(http) CEL

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