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Sample GSM146798 Query DataSets for GSM146798
Status Public on Nov 23, 2006
Title Stage 1, PT#2, Normal (HG-U133B)
Sample type RNA
Source name Human Renal Epithelium
Organism Homo sapiens
Characteristics Normal, 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 GPL97
Series (1)
GSE6344 Gene expression in Stage 1,2 Normal and Tumor kidney cancer

Data table header descriptions
VALUE MAS5-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
AFFX-BioB-5_at 1688.9 P 0.000857
AFFX-BioB-M_at 3984.1 P 0.000147
AFFX-BioB-3_at 1877.4 P 9.50E-05
AFFX-BioC-5_at 4432.1 P 6.00E-05
AFFX-BioC-3_at 4955.9 P 5.20E-05
AFFX-BioDn-5_at 4602.5 P 5.20E-05
AFFX-BioDn-3_at 18988.5 P 4.40E-05
AFFX-CreX-5_at 41376.2 P 4.40E-05
AFFX-CreX-3_at 65116.2 P 4.40E-05
AFFX-DapX-5_at 112.8 A 0.156732
AFFX-DapX-M_at 276.6 M 0.058444
AFFX-DapX-3_at 285.3 A 0.175328
AFFX-LysX-5_at 9494 P 4.40E-05
AFFX-LysX-M_at 26909.8 P 4.40E-05
AFFX-LysX-3_at 42791.7 P 4.40E-05
AFFX-PheX-5_at 19623.4 P 4.40E-05
AFFX-PheX-M_at 38351 P 4.40E-05
AFFX-PheX-3_at 56215.7 P 4.40E-05
AFFX-ThrX-5_at 429 P 0.003595
AFFX-ThrX-M_at 1210 P 9.50E-05

Total number of rows: 22645

Table truncated, full table size 593 Kbytes.

Supplementary file Size Download File type/resource
GSM146798.CEL.gz 3.1 Mb (ftp)(http) CEL

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