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Status |
Public on Dec 19, 2014 |
Title |
Colon Tissue Sample_67 |
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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|
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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
|
Organization name |
The University of Chicago
|
Department |
Health Studies
|
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 |
0.9685669 |
1.464843 |
0.9933978 |
0.011332 |
cnvi0111186 |
NC |
0 |
0 |
0.5156996 |
0 |
0.05036645 |
cnvi0111187 |
NC |
0 |
0.985655 |
1.465265 |
1 |
-0.06045464 |
cnvi0111188 |
NC |
0 |
0.01326167 |
1.555079 |
0 |
0.2529233 |
cnvi0111189 |
NC |
0 |
0.02205798 |
1.50811 |
0 |
0.06443103 |
cnvi0111190 |
NC |
0 |
0.001454624 |
0.5230238 |
0 |
0.5437469 |
cnvi0111191 |
NC |
0 |
0.03193603 |
1.391419 |
0.003460862 |
0.339726 |
cnvi0111192 |
NC |
0 |
0.01722159 |
1.256972 |
0 |
0.174293 |
cnvi0111193 |
NC |
0 |
0.006666116 |
1.07229 |
0 |
-0.1791289 |
cnvi0111194 |
NC |
0 |
0.9905987 |
1.263861 |
1 |
-0.07435656 |
cnvi0111195 |
NC |
0 |
0.03509923 |
2.257587 |
0.002698007 |
0.2093901 |
cnvi0111196 |
NC |
0 |
0.9871702 |
1.191366 |
1 |
-0.04309301 |
cnvi0111197 |
NC |
0 |
0.00955501 |
1.076029 |
0 |
0.2695122 |
cnvi0111198 |
NC |
0 |
0.9623092 |
1.213205 |
0.9913321 |
-0.09639843 |
cnvi0111199 |
NC |
0 |
0.009433736 |
1.263037 |
0 |
-0.00966286 |
cnvi0111200 |
NC |
0 |
0.9910498 |
0.8241876 |
1 |
-0.09776065 |
cnvi0111201 |
NC |
0 |
0.03188997 |
0.8564679 |
0.01404248 |
-0.1109188 |
cnvi0111202 |
NC |
0 |
0.9358767 |
1.416021 |
1 |
0.08695202 |
cnvi0111203 |
NC |
0 |
0.04416856 |
1.737704 |
0.02021523 |
0.06874792 |
cnvi0111204 |
NC |
0 |
0.9883831 |
1.184659 |
0.9999546 |
-0.04050371 |
Total number of rows: 299140
Table truncated, full table size 17236 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
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