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GEO accession:
Sample GSM115138
Query DataSets for GSM115138
Status
Public on Aug 30, 2006
Title
Carcinoma VUMC_C017_b21_s72
Sample type
genomic
Channel 1
Source name
colon
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 available via the VUMC MACF website
Data processing
Using ImaGene as described in Carvalho et al (2004) J.Clin.Path., vol. 57, 644-646. Normalization was done to the mode value of the log2ratio's.
Submission date
Jun 20, 2006
Last update date
Aug 30, 2006
Contact name
Daoud Sie
E-mail(s)
[email protected]
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
GPL3443
Series (1)
GSE5051
Cross-Platform Array Comparative Genomic Hybridization (array CGH) Meta-Analysis
Data table header descriptions
ID_REF
Signal Median CH1
Spot signal in channel 1 (Cy3)
Background Median CH1
Background signal channel 1 (Cy3)
Signal Median CH2
Spot signal in channel 2 (Cy5)
Background Median CH2
Background signal channel 2 (Cy5)
Log2ratio
Flag
A flag to highlight spots that suffer from poor printing and other experimental artefacts (0 acceptable; 2 not acceptable)
VALUE
Normalized value of the log2ratio, features with flag 2 are excluded
Data table
ID_REF
Signal Median CH1
Background Median CH1
Signal Median CH2
Background Median CH2
Log2ratio
Flag
VALUE
1
9438
490
7301
495
0.394758105
0
0.879
2
9070
358.5
7296
381.5
0.333296221
0
0.879
3
8322.5
310.5
7222
343
0.219963566
0
0.879
4
16694
326
27770
334
-0.745192111
0
-0.158
5
16924
293.5
26477.5
311
-0.65388942
0
-0.158
6
16161
326.5
26115.5
325
-0.70376843
0
-0.158
7
7723
230.5
3496
309
1.23324816
3
8
6191
250
4790
242
0.385473534
3
9
8061
238
5500
253
0.576229175
3
10
12913.5
244.5
12609.5
283
0.039539436
0
0.568
11
12077
265
11906
275
0.022278121
0
0.568
12
12215
231
12831.5
275
-0.067324854
0
0.568
13
1532
252
2328
246
-0.701826258
3
0.416
14
2217
275
2359.5
234.5
-0.12991964
0
0.416
15
1804
259
1722
263
0.082626955
3
0.416
16
11234
240
11093
268
0.02234936
0
0.568
17
11063
310
10889
264
0.017276375
0
0.568
18
11169
305
10461
285
0.094384809
0
0.568
19
8625
287
7709
305
0.171396477
3
20
12469
546
11138.5
500
0.164452535
3
Total number of rows:
17328
Table truncated, full table size
754 Kbytes
.
Supplementary data files not provided
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