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Status
Public on Jun 01, 2007
Title
45r rna vs human ref rna - repeat 2 - mAdbID:43754
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
45r 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: 43754
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
-1.991
0.252
1
1
1
160
107
121
90
347
1389
179
38
-50
-1.991
160338_1
-0.328
0.797
1
1
2
1163
400
109
79
1611
387
177
40
0
-0.328
160914_1
0.698
1.622
1
1
3
329
133
127
93
319
77
184
43
0
0.698
161490_1
1.289
2.444
1
1
4
2271
843
120
81
1131
290
177
39
0
1.289
162066_1
-1.239
0.424
1
1
5
517
269
118
81
1202
449
181
43
0
-1.239
162642_1
-0.639
0.642
1
1
6
1076
531
120
77
1794
656
180
43
0
-0.639
163218_1
1.095
2.137
1
1
7
599
238
122
70
421
124
179
37
0
1.095
163794_1
1.204
2.304
1
1
8
150
95
116
81
200
53
184
40
-50
1.204
164370_1
0.116
1.084
1
1
9
120
65
123
79
181
38
184
40
-50
0.116
164946_1
-0.165
0.892
1
1
10
281
155
123
78
375
131
183
54
0
-0.165
165522_1
0.479
1.393
1
1
11
857
442
123
85
756
315
185
60
0
0.479
166098_1
0.531
1.445
1
1
12
440
156
124
71
412
99
175
43
0
0.531
166674_1
-0.412
0.752
1
1
13
539
222
116
73
788
225
178
42
0
-0.412
167250_1
3.544
11.664
1
1
14
9090
15218
127
87
1001
1450
168
43
0
3.544
167826_1
0.227
1.170
1
1
15
304
111
128
78
343
116
180
52
0
0.227
168402_1
-1.074
0.475
1
1
16
270
205
125
88
524
140
193
46
0
-1.074
168978_1
1.531
2.891
1
1
17
123
72
115
76
191
46
188
44
-50
1.531
169554_1
-1.153
0.450
1
1
18
360
185
126
80
758
241
194
45
0
-1.153
159766_1
-0.503
0.705
1
2
1
971
463
110
79
1504
586
181
39
0
-0.503
160342_1
0.686
1.609
1
2
2
967
363
118
84
745
163
173
38
0
0.686
9128 605 Kbytes .Supplementary data files not provided
