 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 19, 2014 |
| Title |
Colon Tissue Sample_128 |
| Sample type |
genomic |
| |
|
| Source name |
Colon tissue, normal
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: colorectal cancer (CRC)
tissue: normal colon mucosa
|
| 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) |
kibriya@uchicago.edu
|
| 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 |
0.977636 |
1.319741 |
1 |
-0.1391592 |
| cnvi0111186 |
NC |
0 |
0.0133763 |
0.5235348 |
0 |
0.07212082 |
| cnvi0111187 |
NC |
0 |
0.9872913 |
1.663277 |
1 |
0.1224118 |
| cnvi0111188 |
NC |
0 |
0.009401136 |
1.280978 |
0 |
-0.02681858 |
| cnvi0111189 |
NC |
0 |
0.03077596 |
1.495095 |
0.004667153 |
0.05192604 |
| cnvi0111190 |
NC |
0 |
0.006850422 |
0.4849717 |
0 |
0.4347708 |
| cnvi0111191 |
NC |
0 |
0.02618161 |
0.929327 |
0 |
-0.2425731 |
| cnvi0111192 |
NC |
0 |
0.02158841 |
1.1457 |
0 |
0.04056982 |
| cnvi0111193 |
NC |
0 |
0.008483979 |
1.091919 |
0 |
-0.1529582 |
| cnvi0111194 |
NC |
0 |
0.9860154 |
1.198774 |
1 |
-0.1506356 |
| cnvi0111195 |
NC |
0 |
0.03098049 |
2.18657 |
0 |
0.1632782 |
| cnvi0111196 |
NC |
0 |
0.9921155 |
1.031943 |
1 |
-0.2503468 |
| cnvi0111197 |
NC |
0 |
0.007483514 |
0.9751313 |
0 |
0.1274632 |
| cnvi0111198 |
NC |
0 |
0.977573 |
1.39043 |
1 |
0.1003092 |
| cnvi0111199 |
NC |
0 |
0.0142036 |
1.439716 |
0 |
0.1792249 |
| cnvi0111200 |
NC |
0 |
0.9938633 |
0.8729426 |
1 |
-0.01484653 |
| cnvi0111201 |
NC |
0 |
0.02671413 |
0.8357605 |
0.008634135 |
-0.1462285 |
| cnvi0111202 |
NC |
0 |
0.9338329 |
1.363815 |
1 |
0.03275716 |
| cnvi0111203 |
NC |
0 |
0.04513144 |
1.840026 |
0.02122807 |
0.151292 |
| cnvi0111204 |
NC |
0 |
0.9910541 |
1.28595 |
1 |
0.07785931 |
Total number of rows: 299140
Table truncated, full table size 17248 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
|
|
|
|
 |
