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Sample GSM237966 Query DataSets for GSM237966
Status Public on Feb 15, 2010
Title 3775T early stage CRC patient's tumor
Sample type RNA
 
Source name tumor collected and archived within 30mins after surgery
Organism Homo sapiens
Characteristics Sex:M, age:71
Extracted molecule total RNA
Extraction protocol 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 5 ug total RNA (Affymetrix)
 
Hybridization protocol Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45 °C on HG U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G3000.
Description Gene expression data from patients without metastasis
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 baseline was arbitrarily set to 500.
 
Submission date Oct 17, 2007
Last update date Aug 28, 2018
Contact name Yi Hong
E-mail(s) hong.yi@sgh.com.sg, fbap8570@yahoo.com
Organization name Singapore General Hospital
Department Colorectal Surgery
Lab CRC research lab
Street address Outram Road
City Singapore
ZIP/Postal code 169608
Country Singapore
 
Platform ID GPL570
Series (1)
GSE9348 Expression data from healthy controls and early stage CRC patient's tumor
Relations
Reanalyzed by GSE119087

Data table header descriptions
ID_REF
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

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 746.822 P 0.000753643
AFFX-BioB-M_at 981.287 P 5.16732e-05
AFFX-BioB-3_at 659.099 P 0.000146581
AFFX-BioC-5_at 1965.32 P 5.16732e-05
AFFX-BioC-3_at 2259.99 P 5.16732e-05
AFFX-BioDn-5_at 4086.21 P 4.42873e-05
AFFX-BioDn-3_at 9124.14 P 9.4506e-05
AFFX-CreX-5_at 25132 P 5.16732e-05
AFFX-CreX-3_at 30615.5 P 4.42873e-05
AFFX-DapX-5_at 22.6905 A 0.5
AFFX-DapX-M_at 40.7106 A 0.327079
AFFX-DapX-3_at 38.944 A 0.760937
AFFX-LysX-5_at 12.9543 A 0.686292
AFFX-LysX-M_at 56.1433 A 0.544587
AFFX-LysX-3_at 23.5437 A 0.205712
AFFX-PheX-5_at 13.7019 A 0.699394
AFFX-PheX-M_at 6.20735 A 0.876428
AFFX-PheX-3_at 14.9444 A 0.868639
AFFX-ThrX-5_at 9.37629 A 0.9273
AFFX-ThrX-M_at 5.92925 A 0.937071

Total number of rows: 54675

Table truncated, full table size 1628 Kbytes.




Supplementary file Size Download File type/resource
GSM237966.CEL.gz 4.6 Mb (ftp)(http) CEL
GSM237966.CHP.gz 297.4 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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