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| Status |
Public on Aug 30, 2006 |
| Title |
Carcinoma VUMC_GT005_bUCSF1.14_s4 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
stomach
|
| Organism |
Homo sapiens |
| Characteristics |
carcinoma
|
| Extracted molecule |
genomic DNA |
| Label |
Cy3
|
| |
|
| Channel 2 |
| Source name |
reference DNA
|
| Organism |
Homo sapiens |
| Characteristics |
Pooled DNA from the blood of 10 normal individuals
|
| Extracted molecule |
genomic DNA |
| Label |
Cy5
|
| |
|
| |
| Description |
protocols according to Snijders,A.M. et al. (2001) Assembly of microarrays for genome-wide measurement of DNA copy number. Nat.Genet., 29, 263-264.
|
| Data processing |
Described in Snijders,A.M. et al. (2001) Assembly of microarrays for genome-wide measurement of DNA copy number. Nat.Genet., 29, 263-264.
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| |
|
| Submission date |
Jun 20, 2006 |
| Last update date |
Aug 30, 2006 |
| Contact name |
Daoud Sie |
| E-mail(s) |
d.sie@vumc.nl
|
| Phone |
+31 20 4442428
|
| Organization name |
Vrije Universiteit Medical Center
|
| Department |
Pathology
|
| Lab |
Microarray Core Facility
|
| Street address |
De Boelelaan 1117
|
| City |
Amsterdam |
| ZIP/Postal code |
1081 HV |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL28 |
| Series (1) |
| GSE5051 |
Cross-Platform Array Comparative Genomic Hybridization (array CGH) Meta-Analysis |
|
| Data table header descriptions |
| ID_REF |
Unique row identifier, genome position order |
| VALUE |
aka LOG2RATIO, mean of log base 2 of LINEAR_RATIO |
| LINEAR_RATIO |
Mean of replicate Cy3/Cy5 ratios |
| LOG2STDDEV |
Standard deviation of VALUE |
| NO_REPLICATES |
Number of replicate spot measurements |
| Data table |
| ID_REF |
VALUE |
LINEAR_RATIO |
LOG2STDDEV |
NO_REPLICATES |
| 1 |
0.008489 |
1.005901 |
0.038659 |
3 |
| 2 |
|
|
|
0 |
| 3 |
-0.333178 |
0.793786 |
0.011887 |
3 |
| 4 |
-0.244625 |
0.844035 |
0.005487 |
3 |
| 5 |
-0.06526 |
0.955773 |
0.00376 |
3 |
| 6 |
-0.032378 |
0.977807 |
0.020836 |
2 |
| 7 |
-0.122313 |
0.918714 |
0.009784 |
3 |
| 8 |
0.05254 |
1.037089 |
0.010683 |
3 |
| 9 |
|
|
|
0 |
| 10 |
-0.244305 |
0.844223 |
0.014753 |
3 |
| 11 |
-0.060283 |
0.959076 |
0.008266 |
3 |
| 12 |
-0.351244 |
0.783908 |
0.014218 |
3 |
| 13 |
-0.01465 |
0.989897 |
0.069511 |
3 |
| 14 |
-0.003373 |
0.997665 |
0.025657 |
3 |
| 15 |
-0.025282 |
0.982629 |
0.010241 |
3 |
| 16 |
-0.04529 |
0.969095 |
0.001854 |
3 |
| 17 |
-0.045909 |
0.96868 |
0.006049 |
3 |
| 18 |
-0.053772 |
0.963414 |
0.006842 |
2 |
| 19 |
-0.1817 |
0.881664 |
0.012773 |
3 |
| 20 |
-0.135479 |
0.910367 |
0.000902 |
3 |
Total number of rows: 2463
Table truncated, full table size 75 Kbytes.
| Supplementary data files not provided |
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