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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_65 |
| Sample type |
genomic |
| |
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| 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.
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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) |
[email protected]
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| 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 |
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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 |
0.9735627 |
1.33335 |
0.9986538 |
-0.1243585 |
| cnvi0111186 |
NC |
0 |
0.01433425 |
0.5801283 |
0 |
0.2202073 |
| cnvi0111187 |
NC |
0 |
0.9876389 |
1.577891 |
1 |
0.04638136 |
| cnvi0111188 |
NC |
0 |
0.01040778 |
1.416789 |
0 |
0.1185603 |
| cnvi0111189 |
NC |
0 |
0.02181279 |
1.582681 |
0 |
0.1340591 |
| cnvi0111190 |
NC |
0 |
0.0006319222 |
0.5810935 |
0 |
0.6956405 |
| cnvi0111191 |
NC |
0 |
0.03003689 |
1.084603 |
0.001455555 |
-0.01966457 |
| cnvi0111192 |
NC |
0 |
0.01958335 |
1.140731 |
0 |
0.03429881 |
| cnvi0111193 |
NC |
0 |
0.00345538 |
1.235891 |
0 |
0.02572769 |
| cnvi0111194 |
NC |
0 |
0.9850131 |
1.277762 |
1 |
-0.05857591 |
| cnvi0111195 |
NC |
0 |
0.03469232 |
2.407952 |
0.002266616 |
0.3024152 |
| cnvi0111196 |
NC |
0 |
0.9906777 |
1.078244 |
1 |
-0.1870271 |
| cnvi0111197 |
NC |
0 |
0.007824079 |
0.9733263 |
0 |
0.1247903 |
| cnvi0111198 |
NC |
0 |
0.9808715 |
1.258031 |
1 |
-0.04405414 |
| cnvi0111199 |
NC |
0 |
0.007868731 |
1.569525 |
0 |
0.3037688 |
| cnvi0111200 |
NC |
0 |
0.9902041 |
0.8425814 |
1 |
-0.06591731 |
| cnvi0111201 |
NC |
0 |
0.0222723 |
0.90022 |
0.003992768 |
-0.03904035 |
| cnvi0111202 |
NC |
0 |
0.9421155 |
1.369871 |
1 |
0.03914894 |
| cnvi0111203 |
NC |
0 |
0.04276407 |
2.008292 |
0.01873787 |
0.2775345 |
| cnvi0111204 |
NC |
0 |
0.9980385 |
1.315557 |
1 |
0.1106984 |
Total number of rows: 299140
Table truncated, full table size 17198 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
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