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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 19, 2014 |
| Title |
Colon Tissue Sample_150 |
| Sample type |
genomic |
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| Source name |
Colon tissue, normal
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| Organism |
Homo sapiens |
| Characteristics |
disease state: colorectal cancer (CRC)
tissue: normal colon mucosa
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
QIAGEN Gentra Puregene kit standard protocol.
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| Label |
C-Bio and A-DNP
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| Label protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
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| Hybridization protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
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| Scan protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using the Illumina BeadArray scanner.
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| Data processing |
Illumina BeadStudio v3.3.4 normalized intensity values and BAF data were imported into PARTEK Genomics Suite for statistical analysis.
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| Submission date |
Dec 23, 2011 |
| Last update date |
Dec 19, 2014 |
| Contact name |
Muhammad Ghulam Kibriya |
| E-mail(s) |
kibriya@uchicago.edu
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| Organization name |
The University of Chicago
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| Department |
Health Studies
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| Street address |
900 E 57th Street
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| City |
Chicago |
| ZIP/Postal code |
60637 |
| Country |
USA |
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| Platform ID |
GPL13829 |
| Series (1) |
| GSE34678 |
A Genome-wide Study of Cytogenetic Changes in Colorectal Cancer Using SNP Microarrays: Possibilities for Future Personalized Treatment |
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| 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 |
0.9792253 |
1.477158 |
1 |
0.02340979 |
| cnvi0111186 |
NC |
0 |
0.006759271 |
0.5063316 |
0 |
0.02391804 |
| cnvi0111187 |
NC |
0 |
0.9873813 |
1.483989 |
1 |
-0.04213589 |
| cnvi0111188 |
NC |
0 |
0.008081444 |
1.383302 |
0 |
0.084052 |
| cnvi0111189 |
NC |
0 |
0.02305919 |
1.544319 |
0 |
0.09865991 |
| cnvi0111190 |
NC |
0 |
0 |
0.5303385 |
0 |
0.5637836 |
| cnvi0111191 |
NC |
0 |
0.02434731 |
1.104685 |
0 |
0.006803719 |
| cnvi0111192 |
NC |
0 |
0.01595602 |
1.258862 |
0 |
0.1764604 |
| cnvi0111193 |
NC |
0 |
0.00667138 |
1.311596 |
0 |
0.1114998 |
| cnvi0111194 |
NC |
0 |
0.9931327 |
1.14221 |
1 |
-0.2203663 |
| cnvi0111195 |
NC |
0 |
0.02758949 |
2.348274 |
0 |
0.2662093 |
| cnvi0111196 |
NC |
0 |
0.9896138 |
1.185463 |
1 |
-0.05025965 |
| cnvi0111197 |
NC |
0 |
0.01060642 |
0.9551496 |
0 |
0.09759344 |
| cnvi0111198 |
NC |
0 |
0.9726513 |
1.261187 |
1 |
-0.04044015 |
| cnvi0111199 |
NC |
0 |
0.0122868 |
1.55623 |
0 |
0.2914959 |
| cnvi0111200 |
NC |
0 |
0.9958726 |
0.9583268 |
1 |
0.1197844 |
| cnvi0111201 |
NC |
0 |
0.01871702 |
0.7916931 |
0.0002777842 |
-0.2243768 |
| cnvi0111202 |
NC |
0 |
0.9465508 |
1.329042 |
1 |
-0.004504226 |
| cnvi0111203 |
NC |
0 |
0.04198533 |
2.102798 |
0.01791872 |
0.3438757 |
| cnvi0111204 |
NC |
0 |
0.9901759 |
1.209166 |
1 |
-0.01096305 |
Total number of rows: 299140
Table truncated, full table size 17065 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
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