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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_114 |
| Sample type |
genomic |
| |
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| 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.
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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
|
| 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 |
0.9842098 |
1.411855 |
1 |
-0.0418218 |
| cnvi0111186 |
NC |
0 |
0.001346366 |
0.5208142 |
0 |
0.06460418 |
| cnvi0111187 |
NC |
0 |
0.9924179 |
1.390082 |
1 |
-0.136446 |
| cnvi0111188 |
NC |
0 |
0.006882508 |
1.289949 |
0 |
-0.01675081 |
| cnvi0111189 |
NC |
0 |
0.02096611 |
1.586096 |
0 |
0.1371691 |
| cnvi0111190 |
NC |
0 |
0 |
0.2086191 |
0 |
-0.7822587 |
| cnvi0111191 |
NC |
0 |
0.02175975 |
0.8057071 |
0 |
-0.4485039 |
| cnvi0111192 |
NC |
0 |
0.01375938 |
1.154109 |
0 |
0.05111971 |
| cnvi0111193 |
NC |
0 |
0.006193504 |
1.214156 |
0 |
0.0001293304 |
| cnvi0111194 |
NC |
0 |
0.9882157 |
1.161553 |
1 |
-0.1961398 |
| cnvi0111195 |
NC |
0 |
0.02448167 |
2.194941 |
0 |
0.1687904 |
| cnvi0111196 |
NC |
0 |
0.9930955 |
1.135239 |
1 |
-0.112714 |
| cnvi0111197 |
NC |
0 |
0.00132431 |
0.9500558 |
0 |
0.08987895 |
| cnvi0111198 |
NC |
0 |
0.9718326 |
1.052529 |
1 |
-0.3013619 |
| cnvi0111199 |
NC |
0 |
0.003992854 |
1.300611 |
0 |
0.0326301 |
| cnvi0111200 |
NC |
0 |
0.9924254 |
0.8709032 |
1 |
-0.018221 |
| cnvi0111201 |
NC |
0 |
0.01307733 |
0.7006744 |
0 |
-0.4005738 |
| cnvi0111202 |
NC |
0 |
0.94513 |
1.391031 |
1 |
0.06126336 |
| cnvi0111203 |
NC |
0 |
0.0467948 |
1.917846 |
0.02297774 |
0.211052 |
| cnvi0111204 |
NC |
0 |
0.9890633 |
1.284843 |
1 |
0.07661647 |
Total number of rows: 299140
Table truncated, full table size 16978 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
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