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GEO accession:
Sample GSM38970
Query DataSets for GSM38970
Status
Public on Jan 14, 2006
Title
207c: AEC I- AEC II
Sample type
RNA
Channel 1
Source name
AEC I
Organism
Rattus norvegicus
Extracted molecule
total RNA
Channel 2
Source name
AEC II
Organism
Rattus norvegicus
Extracted molecule
total RNA
Description
Freshly isolated alveolar epithelial cells (AEC) type I and II were monitored for transcriptome with DNA microarray hybridization using 3DNA 50 version 2 kit.
Submission date
Jan 14, 2005
Last update date
May 29, 2005
Contact name
Zhongming Chen
E-mail(s)
zhongmi@okstate.edu
Phone
405-744-0329
URL
http://www.cvm.okstate.edu/research/Facilities/LungBiologyLab/
Organization name
Oklahoma State University
Department
Deptment of Physiological Sciences
Lab
Lin Liu Lab
Street address
264 McElroy Hall
City
Stillwater
State/province
OK
ZIP/Postal code
74078
Country
USA
Platform ID
GPL1699
Series (1)
GSE2160
Transcriptomes of Alveolar epithelial cells
Data table header descriptions
ID_REF
X
Y
Dia.
F Pixels
B Pixels
F3 Mean
B3 Mean
F5 Mean
B5 Mean
F3 Mean - B3
CH1 signal: green, background subtracted fluorescence intensity
F5 Mean - B5
CH2 signal: red, background-subtracted fluorescence intensity
F3 SD
B3 SD
B5 SD
F5 SD
F3 Median
F5 Median
F5 Median - B5
F5 Total Intensity
F5 % Sat.
F3 Total Intensity
F3 Median - B3
F3 % Sat.
B5 Median
B3 Median
Sum of Medians
Sum of Means
SNR 5
SNR 3
Rgn R? (5/3)
Rgn Ratio (5/3)
Ratios SD (5/3)
Ratio of Medians (5/3)
Ratio of Means (5/3)
Median of Ratios (5/3)
Mean of Ratios (5/3)
Log Ratio (5/3)
Flags
Spot quality from GenePix
% > B5+2SD
% > B5+1SD
% > B3+2SD
% > B3+1SD
VALUE
LOWESS normalized log ratio of "F3 mean -B3" vs "F5 mean - B5"
CH1_MEAN
Linearly scaled "F3 mean -B3" as: lowest 5% to 0, highest 5% to 255
CH2_MEAN
Linearly scaled "F5 mean -B5" as: lowest 5% to 0, highest 5% to 255
Data table
ID_REF
X
Y
Dia.
F Pixels
B Pixels
F3 Mean
B3 Mean
F5 Mean
B5 Mean
F3 Mean - B3
F5 Mean - B5
F3 SD
B3 SD
B5 SD
F5 SD
F3 Median
F5 Median
F5 Median - B5
F5 Total Intensity
F5 % Sat.
F3 Total Intensity
F3 Median - B3
F3 % Sat.
B5 Median
B3 Median
Sum of Medians
Sum of Means
SNR 5
SNR 3
Rgn R? (5/3)
Rgn Ratio (5/3)
Ratios SD (5/3)
Ratio of Medians (5/3)
Ratio of Means (5/3)
Median of Ratios (5/3)
Mean of Ratios (5/3)
Log Ratio (5/3)
Flags
% > B5+2SD
% > B5+1SD
% > B3+2SD
% > B3+1SD
VALUE
CH1_MEAN
CH2_MEAN
AF007818
1220
44850
80
52
332
482
190
109
94
345
19
317
134
22
33
425
104
14
5674
0
25057
288
0
90
137
302
364
0.682
2.179
0.029
0.019
2.79
0.049
0.055
0.12
0.124
-4.363
0
19
38
53
73
1.51
20.85
0.79
AF027331
1410
44850
70
32
236
801
187
571
98
667
480
405
139
35
232
734
542
451
18261
0
25625
600
0
91
134
1051
1147
13.514
4.417
0.379
0.478
2.48
0.752
0.72
0.738
0.74
-0.412
0
100
100
87
90
-0.11
47.82
41.51
AF032925
1590
44860
80
52
316
1515
199
1227
93
1371
1136
874
144
28
659
1532
1191
1100
63823
0
78790
1388
0
91
144
2488
2507
40.5
9.139
0.706
0.779
2.009
0.793
0.829
0.824
0.879
-0.336
0
100
100
90
92
-0.07
106.77
99.46
AF046886
1770
44870
80
52
321
323
153
132
93
219
44
245
111
26
77
236
105
17
6874
0
16793
132
0
88
104
149
263
1.5
1.532
0.217
0.137
3.526
0.129
0.201
0.161
0.179
-2.957
0
26
40
42
57
0
10.3
3
S79292
1950
44860
80
52
340
819
144
600
96
719
511
453
94
26
303
831
548
459
31212
0
42566
731
0
89
100
1190
1230
19.385
7.181
0.477
0.603
2.273
0.628
0.711
0.651
0.729
-0.671
0
100
100
90
96
-0.05
52.17
44.25
NM_053986
2130
44850
80
52
312
897
148
195
94
792
107
530
94
20
102
777
156
68
10144
0
46668
672
0
88
105
740
899
5.05
7.968
0.222
0.079
3.049
0.101
0.135
0.119
0.117
-3.305
0
71
88
90
96
1.88
58.28
8.57
NM_019360
2310
44850
110
80
532
3170
137
2733
95
3075
2643
2212
99
22
2012
3590
3157
3067
218632
0
253583
3495
0
90
95
6562
5718
119.909
30.636
0.84
0.873
2.236
0.878
0.86
0.889
0.877
-0.188
0
95
96
82
88
0.15
249.45
232.57
M35602
2510
44850
70
32
232
341
146
163
92
240
76
187
107
20
62
296
155
68
5208
0
10913
195
0
87
101
263
316
3.55
1.822
0.077
0.093
5.171
0.349
0.317
0.277
0.325
-1.52
0
68
78
46
75
-0.18
12.06
5.83
M64391
2670
44850
90
52
400
368
147
253
94
270
164
215
108
24
166
333
201
112
13143
0
19146
235
0
89
98
347
434
6.625
2.046
0.343
0.453
3.284
0.477
0.607
0.666
0.677
-1.069
0
76
82
51
75
-0.6
14.57
13.6
S48142
2860
44840
90
52
383
361
144
129
94
262
39
222
105
22
59
294
105
15
6721
0
18784
195
0
90
99
210
301
1.591
2.067
0.09
0.069
3.757
0.077
0.149
0.144
0.181
-3.7
0
26
46
48
67
0.49
13.9
2.56
AB050745
3030
44850
90
52
399
628
150
792
94
525
702
402
104
21
283
532
742
652
41161
0
32632
429
0
90
103
1081
1227
33.238
4.596
0.468
1.269
2.058
1.52
1.337
1.508
1.619
0.604
0
100
100
73
96
-0.96
35.93
61.12
NM_030838
3220
44840
70
32
236
416
145
415
92
320
327
259
108
21
171
333
424
336
13271
0
13303
237
0
88
96
573
647
15.381
2.509
0.273
0.611
3.504
1.418
1.022
1.043
1.095
0.504
0
93
96
50
78
-0.95
18.76
28
NM_017026
3390
44840
70
32
236
469
140
224
97
373
132
284
104
23
124
448
184
92
7159
0
14997
352
0
92
96
444
505
5.522
3.163
0.186
0.216
4.092
0.261
0.354
0.327
0.289
-1.936
0
68
81
65
81
0.24
23.2
10.78
NM_053295
3570
44850
70
32
236
838
152
516
97
730
425
452
100
24
236
713
524
433
16516
0
26803
605
0
91
108
1038
1155
17.458
6.86
0.54
0.445
2.102
0.716
0.582
0.53
0.62
-0.483
0
96
96
96
100
0.18
53.09
36.66
NM_023101
3750
44840
90
52
400
418
149
220
96
315
130
202
105
24
128
418
195
105
11445
0
21749
315
0
90
103
420
445
5.167
2.562
0.17
0.217
3.35
0.333
0.413
0.309
0.32
-1.585
0
67
80
69
84
-0.09
18.34
10.6
U60562
3940
44850
70
32
236
483
145
239
91
379
150
243
97
19
117
441
216
127
7654
0
15470
337
0
89
104
464
529
7.789
3.485
0.228
0.241
3.805
0.377
0.396
0.405
0.377
-1.408
0
87
93
75
87
0.16
23.7
12.37
NM_012873
4130
44840
100
80
442
1863
144
2137
93
1764
2048
1360
98
22
1515
2009
2738
2649
170926
0
149041
1910
0
89
99
4559
3812
92.909
17.541
0.852
1.164
2.35
1.387
1.161
1.137
1.215
0.472
0
97
97
80
85
-0.42
139.67
180.01
M25823
4300
44830
80
52
301
356
134
175
92
261
87
254
88
20
107
286
159
71
9103
0
18491
191
0
88
95
262
348
4.15
2.523
0.074
0.105
4.63
0.372
0.333
0.429
0.413
-1.428
0
59
71
50
71
-0.11
13.82
6.8
NM_019323
4490
44840
70
32
236
467
125
214
96
374
126
296
85
31
112
438
186
98
6853
0
14942
345
0
88
93
443
500
3.806
4.024
0.123
0.137
3.238
0.284
0.337
0.39
0.409
-1.816
0
62
87
65
75
0.29
23.28
10.25
NM_053655
4660
44840
80
52
332
398
121
254
93
307
166
302
77
21
142
322
223
135
13205
0
20682
231
0
88
91
366
473
7.667
3.597
0.144
0.222
4.8
0.584
0.541
0.453
0.594
-0.775
0
80
90
61
69
-0.35
17.67
13.78
Total number of rows:
10000
Table truncated, full table size
2030 Kbytes
.
Supplementary data files not provided
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