 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 19, 2014 |
| Title |
Colon Tissue Sample_109 |
| Sample type |
genomic |
| |
|
| Source name |
Colon tissue, tumor
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: colorectal cancer (CRC)
tissue: colon tumor
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
QIAGEN Gentra Puregene kit standard protocol.
|
| Label |
C-Bio and A-DNP
|
| Label protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
|
| |
|
| Hybridization protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
|
| Scan protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using the Illumina BeadArray scanner.
|
| Data processing |
Illumina BeadStudio v3.3.4 normalized intensity values and BAF data were imported into PARTEK Genomics Suite for statistical analysis.
|
| |
|
| Submission date |
Dec 23, 2011 |
| Last update date |
Dec 19, 2014 |
| Contact name |
Muhammad Ghulam Kibriya |
| E-mail(s) |
[email protected]
|
| Organization name |
The University of Chicago
|
| Department |
Health Studies
|
| Street address |
900 E 57th Street
|
| City |
Chicago |
| ZIP/Postal code |
60637 |
| Country |
USA |
| |
|
| Platform ID |
GPL13829 |
| Series (1) |
| GSE34678 |
A Genome-wide Study of Cytogenetic Changes in Colorectal Cancer Using SNP Microarrays: Possibilities for Future Personalized Treatment |
|
| Data table header descriptions |
| ID_REF |
|
| VALUE |
Genotype: AA, AB, BB, or NC (no call) |
| Score |
Score |
| Theta |
Theta |
| R |
R |
| B Allele Freq |
BAF |
| Log R Ratio |
Log R Ratio |
| Data table |
| ID_REF |
VALUE |
Score |
Theta |
R |
B Allele Freq |
Log R Ratio |
| cnvi0111185 |
NC |
0 |
0.9795322 |
1.48264 |
1 |
0.02875382 |
| cnvi0111186 |
NC |
0 |
0.007192733 |
0.4398582 |
0 |
-0.1791261 |
| cnvi0111187 |
NC |
0 |
0.9859836 |
1.358527 |
1 |
-0.1695727 |
| cnvi0111188 |
NC |
0 |
0.006433433 |
1.38725 |
0 |
0.08816287 |
| cnvi0111189 |
NC |
0 |
0.01837342 |
1.492097 |
0 |
0.04903067 |
| cnvi0111190 |
NC |
0 |
0 |
0.4511903 |
0 |
0.3306063 |
| cnvi0111191 |
NC |
0 |
0.0211813 |
1.182086 |
0 |
0.1045031 |
| cnvi0111192 |
NC |
0 |
0.0179936 |
1.310009 |
0 |
0.2339174 |
| cnvi0111193 |
NC |
0 |
0.006723724 |
1.326892 |
0 |
0.1282266 |
| cnvi0111194 |
NC |
0 |
0.9858491 |
1.265907 |
1 |
-0.07202323 |
| cnvi0111195 |
NC |
0 |
0.03158478 |
2.202358 |
0 |
0.1736577 |
| cnvi0111196 |
NC |
0 |
0.98673 |
1.213305 |
1 |
-0.01676741 |
| cnvi0111197 |
NC |
0 |
0 |
0.9727787 |
0 |
0.1239783 |
| cnvi0111198 |
NC |
0 |
0.9693082 |
1.06884 |
0.9987287 |
-0.2791763 |
| cnvi0111199 |
NC |
0 |
0.009128407 |
1.460037 |
0 |
0.1994452 |
| cnvi0111200 |
NC |
0 |
0.990433 |
0.8697324 |
1 |
-0.02016182 |
| cnvi0111201 |
NC |
0 |
0.0186217 |
0.773465 |
0.0001781873 |
-0.257982 |
| cnvi0111202 |
NC |
0 |
0.9166054 |
1.414577 |
0.9900083 |
0.08547997 |
| cnvi0111203 |
NC |
0 |
0.04309082 |
1.856191 |
0.01908157 |
0.1639104 |
| cnvi0111204 |
NC |
0 |
0.9911645 |
1.130494 |
1 |
-0.1080228 |
Total number of rows: 299140
Table truncated, full table size 17000 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
|
|
|
|
 |
