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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_159 |
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 |
|
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 |
0.9770982 |
1.128016 |
1 |
-0.3656271 |
cnvi0111186 |
NC |
0 |
0.01199634 |
0.5463303 |
0 |
0.133609 |
cnvi0111187 |
NC |
0 |
0.9882056 |
1.476638 |
1 |
-0.04930002 |
cnvi0111188 |
NC |
0 |
0.009726495 |
1.266109 |
0 |
-0.04366318 |
cnvi0111189 |
NC |
0 |
0.02526223 |
1.344774 |
0 |
-0.1009468 |
cnvi0111190 |
NC |
0 |
0.003223263 |
0.586112 |
0 |
0.7080467 |
cnvi0111191 |
NC |
0 |
0.03046769 |
0.5606033 |
0.001910443 |
-0.9717792 |
cnvi0111192 |
NC |
0 |
0.0172981 |
1.063958 |
0 |
-0.06621855 |
cnvi0111193 |
NC |
0 |
0.008290587 |
1.214031 |
0 |
-1.8416E-05 |
cnvi0111194 |
NC |
0 |
0.9912732 |
1.305605 |
1 |
-0.02747603 |
cnvi0111195 |
NC |
0 |
0.02851032 |
2.213922 |
0 |
0.1812125 |
cnvi0111196 |
NC |
0 |
0.9857343 |
1.112095 |
1 |
-0.14243 |
cnvi0111197 |
NC |
0 |
0.01038162 |
1.009075 |
0 |
0.1768278 |
cnvi0111198 |
NC |
0 |
0.9738908 |
1.265229 |
1 |
-0.03582393 |
cnvi0111199 |
NC |
0 |
0.00875107 |
1.497901 |
0 |
0.2363829 |
cnvi0111200 |
NC |
0 |
0.9966214 |
0.8456551 |
1 |
-0.06066391 |
cnvi0111201 |
NC |
0 |
0.02188331 |
0.8234724 |
0.003586307 |
-0.1675978 |
cnvi0111202 |
NC |
0 |
0.9365634 |
1.390651 |
1 |
0.06087014 |
cnvi0111203 |
NC |
0 |
0.02738517 |
1.830586 |
0.002561016 |
0.1438708 |
cnvi0111204 |
NC |
0 |
0.9863726 |
1.153491 |
0.9978684 |
-0.07896953 |
Total number of rows: 299140
Table truncated, full table size 17202 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
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