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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_123 |
Sample type |
genomic |
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Source name |
Colon tissue, normal
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Organism |
Homo sapiens |
Characteristics |
disease state: colorectal cancer (CRC) tissue: normal colon mucosa
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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 |
0.9804706 |
1.345498 |
1 |
-0.1112742 |
cnvi0111186 |
NC |
0 |
0.001680708 |
0.4808115 |
0 |
-0.05069304 |
cnvi0111187 |
NC |
0 |
0.990237 |
1.447387 |
1 |
-0.07816546 |
cnvi0111188 |
NC |
0 |
0.01171577 |
1.387363 |
0 |
0.08828051 |
cnvi0111189 |
NC |
0 |
0.02140109 |
1.47517 |
0 |
0.03256998 |
cnvi0111190 |
NC |
0 |
0 |
0.2960501 |
0 |
-0.2772884 |
cnvi0111191 |
NC |
0 |
0.02698699 |
1.02363 |
0 |
-0.1031362 |
cnvi0111192 |
NC |
0 |
0.01793896 |
1.161162 |
0 |
0.05990996 |
cnvi0111193 |
NC |
0 |
0.003535418 |
1.133602 |
0 |
-0.09890985 |
cnvi0111194 |
NC |
0 |
0.9935828 |
1.249255 |
1 |
-0.09112623 |
cnvi0111195 |
NC |
0 |
0.02991542 |
2.103429 |
0 |
0.1073514 |
cnvi0111196 |
NC |
0 |
0.9897708 |
1.070799 |
1 |
-0.1970225 |
cnvi0111197 |
NC |
0 |
0.00297237 |
1.004387 |
0 |
0.1701096 |
cnvi0111198 |
NC |
0 |
0.9681677 |
1.250435 |
0.9975234 |
-0.05279198 |
cnvi0111199 |
NC |
0 |
0.009829629 |
1.407686 |
0 |
0.146766 |
cnvi0111200 |
NC |
0 |
0.9919255 |
0.8716533 |
1 |
-0.01697902 |
cnvi0111201 |
NC |
0 |
0.01553504 |
0.744814 |
0 |
-0.3124379 |
cnvi0111202 |
NC |
0 |
0.9362453 |
1.358351 |
1 |
0.02696607 |
cnvi0111203 |
NC |
0 |
0.04367489 |
1.951795 |
0.01969595 |
0.2363671 |
cnvi0111204 |
NC |
0 |
0.9910437 |
1.357352 |
1 |
0.1558188 |
Total number of rows: 299140
Table truncated, full table size 17090 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
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