 |
 |
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Dec 19, 2014 |
Title |
Colon Tissue Sample_106 |
Sample type |
genomic |
|
|
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.
|
|
|
Hybridization protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using automation with the Tecan Evo robot.
|
Scan protocol |
Illumina Infinium standard protocol for 610 Quad and CytoSNP 12 chips, using the Illumina BeadArray scanner.
|
Data processing |
Illumina BeadStudio v3.3.4 normalized intensity values and BAF data were imported into PARTEK Genomics Suite for statistical analysis.
|
|
|
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
|
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 |
|
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 |
0.9868992 |
1.048109 |
1 |
-0.4716257 |
cnvi0111186 |
NC |
0 |
0.000625087 |
0.4545893 |
0 |
-0.1316009 |
cnvi0111187 |
NC |
0 |
0.9871603 |
1.503608 |
1 |
-0.02318757 |
cnvi0111188 |
NC |
0 |
0.007792047 |
1.28206 |
0 |
-0.02560043 |
cnvi0111189 |
NC |
0 |
0.01908062 |
1.286604 |
0 |
-0.1647433 |
cnvi0111190 |
NC |
0 |
0.001026822 |
0.4306211 |
0 |
0.2632893 |
cnvi0111191 |
NC |
0 |
0.02066449 |
1.060892 |
0 |
-0.051553 |
cnvi0111192 |
NC |
0 |
0.01837951 |
1.199663 |
0 |
0.1069704 |
cnvi0111193 |
NC |
0 |
0.004790785 |
1.105136 |
0 |
-0.1355995 |
cnvi0111194 |
NC |
0 |
0.9950172 |
1.265725 |
1 |
-0.07223015 |
cnvi0111195 |
NC |
0 |
0.02553697 |
2.102796 |
0 |
0.1069175 |
cnvi0111196 |
NC |
0 |
0.9917575 |
1.125561 |
1 |
-0.1250657 |
cnvi0111197 |
NC |
0 |
0.00388328 |
1.003405 |
0 |
0.1686985 |
cnvi0111198 |
NC |
0 |
0.9741247 |
1.043932 |
1 |
-0.3131937 |
cnvi0111199 |
NC |
0 |
0.01113343 |
1.418195 |
0 |
0.1574971 |
cnvi0111200 |
NC |
0 |
0.9896383 |
0.8126333 |
1 |
-0.1181288 |
cnvi0111201 |
NC |
0 |
0.01259824 |
0.77179 |
0 |
-0.2611096 |
cnvi0111202 |
NC |
0 |
0.9384798 |
1.483641 |
1 |
0.1542514 |
cnvi0111203 |
NC |
0 |
0.04087877 |
1.914979 |
0.01675474 |
0.2088936 |
cnvi0111204 |
NC |
0 |
0.9904528 |
1.142786 |
1 |
-0.09242071 |
Total number of rows: 299140
Table truncated, full table size 17018 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
|
|
|
|
 |