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Status
Public on Jun 01, 2007
Title
46r rna vs human ref rna - repeat 2 - mAdbID:43756
Sample type
RNA
Channel 1 Source name
Universal Human Reference RNA - Cy3
Organism
Homo sapiens Characteristics
Other: Equal quantities of total RNA from each cell line (brain, breast, B-lymphocyte, cervix, liver, liposarcoma, macrophages, skin, testis, Y-lymphocyte) were pooled together.
Biomaterial provider
Stratagene (La Jolla, CA)
Extracted molecule
total RNA
Label
cy3
Label protocol
Cy3 Sample Labeling Protocol - generic
Channel 2 Source name
46r DNR- Cy5
Organism
Homo sapiens Characteristics
Strain: athymic nude mouse
Extracted molecule
total RNA
Extraction protocol
Sample Extraction Protocol
Label
cy5
Label protocol
Cy5 Sample Labeling Protocol - generic
Hybridization protocol
FairPlay Microarray Labeling Kit
Description
mAdb experiment ID: 43756
Data processing
After background correction and removal of flagged values, log base 2 expression ratios were median centered and linear transformed to obtain the log and linear values given in the data table.
Submission date
Jul 07, 2006
Last update date
Jul 10, 2006
Contact name
binwu tang
E-mail(s)
[email protected] Phone
3014968344
Fax
3014968395
Organization name
nih
Department
nci
Lab
lcrc
Street address
9000 rockville pike
City
bethesda
State/province
MD
ZIP/Postal code
20892
Country
USA
Platform ID
GPL1262 Series (1)
GSE5265 TGF-beta on breast cancer cell
Data table header descriptions ID_REF NCI mAdb well id plus replicate number
VALUE same as UNF_VALUE but with flagged values removed
PRE_VALUE Calibrated Ratio (CY5 channel/CY3 channel)
Slide_block Array block location
Slide_column Array column location
Slide_row Array row location
CY5_mean Red Channel Sample mean Signal (Background Subtracted)
CY5_SD Red Channel Sample Standard Deviation
CY5_BKD_median Red Channel Sample median Background Level
CY5_BKD_SD Red Channel Sample Background Standard Deviation
CY3_mean Green Channel Sample mean Signal (Background Subtracted)
CY3_SD Green Channel Sample Standard Deviation
CY3_BKD_median Green Channel Sample median Background Level
CY3_BKD_SD Green Channel Sample Background Standard Deviation
Flag Quality flag 0->good, -50->Not found, -100->Bad
UNF_VALUE log ratio (log2 of PRE_VALUE)
Data table ID_REF VALUE PRE_VALUE Slide_block Slide_column Slide_row CY5_mean CY5_SD CY5_BKD_median CY5_BKD_SD CY3_mean CY3_SD CY3_BKD_median CY3_BKD_SD Flag UNF_VALUE 159762_1
0.926
1.900
1
1
1
168
58
61
29
240
65
180
39
0
0.926
160338_1
-0.067
0.955
1
1
2
1082
362
64
27
1321
421
185
43
0
-0.067
160914_1
-0.015
0.990
1
1
3
195
79
64
30
325
80
184
42
0
-0.015
161490_1
1.925
3.796
1
1
4
2136
918
62
27
763
338
181
44
0
1.925
162066_1
-1.133
0.456
1
1
5
471
189
61
22
1139
415
181
50
0
-1.133
162642_1
-0.534
0.691
1
1
6
968
277
61
33
1584
399
185
54
0
-0.534
163218_1
1.702
3.253
1
1
7
633
198
65
37
365
119
179
55
0
1.702
163794_1
0.030
1.021
1
1
8
204
67
65
28
331
115
186
47
0
0.030
164370_1
2.413
5.326
1
1
9
67
22
62
42
180
44
180
43
-50
2.413
164946_1
-0.385
0.766
1
1
10
202
82
64
26
374
93
182
40
0
-0.385
165522_1
-0.037
0.975
1
1
11
773
248
63
36
965
285
189
44
0
-0.037
166098_1
0.628
1.545
1
1
12
370
123
64
26
392
135
181
48
0
0.628
166674_1
-0.279
0.824
1
1
13
441
167
58
24
674
193
179
43
0
-0.279
167250_1
2.094
4.269
1
1
14
1795
3815
60
24
607
375
174
41
0
2.094
167826_1
0.383
1.304
1
1
15
200
94
58
25
297
112
181
43
0
0.383
168402_1
-1.143
0.453
1
1
16
170
96
65
26
421
142
174
43
0
-1.143
168978_1
1.676
3.196
1
1
17
67
25
64
27
175
38
184
41
-50
1.676
169554_1
-1.174
0.443
1
1
18
268
120
60
24
682
238
182
59
0
-1.174
159766_1
-0.498
0.708
1
2
1
701
323
63
26
1145
420
185
39
0
-0.498
160342_1
0.875
1.834
1
2
2
722
178
61
27
565
123
181
40
0
0.875
9128 592 Kbytes .Supplementary data files not provided
