 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Dec 19, 2014 |
| Title |
Colon Tissue Sample_66 |
| 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 |
0.9618867 |
1.528713 |
0.9863695 |
0.07290337 |
| cnvi0111186 |
NC |
0 |
0.004171759 |
0.5602376 |
0 |
0.1698744 |
| cnvi0111187 |
NC |
0 |
0.9739438 |
1.39187 |
0.9883364 |
-0.1345917 |
| cnvi0111188 |
NC |
0 |
0.0116943 |
1.339778 |
0 |
0.03792953 |
| cnvi0111189 |
NC |
0 |
0.02995781 |
1.479043 |
0.003805315 |
0.03635345 |
| cnvi0111190 |
NC |
0 |
0.003763491 |
0.4888259 |
0 |
0.4461911 |
| cnvi0111191 |
NC |
0 |
0.03697476 |
1.037327 |
0.008781261 |
-0.08396077 |
| cnvi0111192 |
NC |
0 |
0.02474849 |
1.172101 |
0 |
0.07343788 |
| cnvi0111193 |
NC |
0 |
0.01389945 |
1.174511 |
0.0001048203 |
-0.04776391 |
| cnvi0111194 |
NC |
0 |
0.9907603 |
1.373692 |
1 |
0.0458639 |
| cnvi0111195 |
NC |
0 |
0.04255114 |
2.139228 |
0.01059818 |
0.1316987 |
| cnvi0111196 |
NC |
0 |
0.9916861 |
1.085734 |
1 |
-0.1770394 |
| cnvi0111197 |
NC |
0 |
0.01487881 |
1.138017 |
0.002263091 |
0.3503167 |
| cnvi0111198 |
NC |
0 |
0.9686852 |
1.288246 |
0.9980702 |
-0.00981361 |
| cnvi0111199 |
NC |
0 |
0.01112652 |
1.336946 |
0 |
0.07238189 |
| cnvi0111200 |
NC |
0 |
0.9919049 |
0.915316 |
1 |
0.05353661 |
| cnvi0111201 |
NC |
0 |
0.02981738 |
0.8293611 |
0.01187679 |
-0.1573177 |
| cnvi0111202 |
NC |
0 |
0.9300245 |
1.324886 |
1 |
-0.009022429 |
| cnvi0111203 |
NC |
0 |
0.05082529 |
2.192573 |
0.02721736 |
0.4041904 |
| cnvi0111204 |
NC |
0 |
0.9903492 |
1.264954 |
1 |
0.05410904 |
Total number of rows: 299140
Table truncated, full table size 17592 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
|
|
|
|
 |
