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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_88 |
Sample type |
genomic |
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Source name |
Colon tissue, tumor
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Organism |
Homo sapiens |
Characteristics |
disease state: colorectal cancer (CRC) tissue: colon tumor
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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 |
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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 |
0.9755728 |
1.570706 |
1 |
0.1119992 |
cnvi0111186 |
NC |
0 |
0.007164645 |
0.6244861 |
0 |
0.3265049 |
cnvi0111187 |
NC |
0 |
0.9852188 |
1.383338 |
1 |
-0.1434631 |
cnvi0111188 |
NC |
0 |
0.009373469 |
1.207786 |
0 |
-0.1117001 |
cnvi0111189 |
NC |
0 |
0.02066156 |
1.532541 |
0 |
0.08761502 |
cnvi0111190 |
NC |
0 |
0.002629454 |
0.5266244 |
0 |
0.5536445 |
cnvi0111191 |
NC |
0 |
0.02534491 |
0.9932482 |
0 |
-0.146605 |
cnvi0111192 |
NC |
0 |
0.02080086 |
1.04632 |
0 |
-0.09033509 |
cnvi0111193 |
NC |
0 |
0.003600843 |
1.263987 |
0 |
0.05815803 |
cnvi0111194 |
NC |
0 |
0.9935642 |
1.168364 |
1 |
-0.1877045 |
cnvi0111195 |
NC |
0 |
0.02894704 |
2.221013 |
0 |
0.1858261 |
cnvi0111196 |
NC |
0 |
0.9834246 |
1.044428 |
1 |
-0.2329967 |
cnvi0111197 |
NC |
0 |
0.0111603 |
0.9754074 |
0 |
0.1278716 |
cnvi0111198 |
NC |
0 |
0.9678996 |
1.230335 |
0.9972401 |
-0.07617015 |
cnvi0111199 |
NC |
0 |
0.01113613 |
1.487353 |
0 |
0.2261879 |
cnvi0111200 |
NC |
0 |
0.9870133 |
0.9745941 |
1 |
0.1440682 |
cnvi0111201 |
NC |
0 |
0.01865857 |
0.816184 |
0.0002167088 |
-0.1804235 |
cnvi0111202 |
NC |
0 |
0.9292937 |
1.237039 |
1 |
-0.1079992 |
cnvi0111203 |
NC |
0 |
0.04727637 |
1.873273 |
0.0234843 |
0.1771266 |
cnvi0111204 |
NC |
0 |
0.994244 |
1.232116 |
1 |
0.01616292 |
Total number of rows: 299140
Table truncated, full table size 17255 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
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