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GEO accession:
Sample GSM111872
Query DataSets for GSM111872
Status
Public on Sep 22, 2006
Title
P. berghei wt vs Dz H3
Sample type
RNA
Channel 1
Source name
Plasmodium berghei wt
Organism
Plasmodium berghei
Characteristics
genotype: wild type
Extracted molecule
total RNA
Extraction protocol
Mair et al., 2006
Label
Cy5
Label protocol
Agilent
Channel 2
Source name
Plasmodium berghei mutant H3
Organism
Plasmodium berghei
Characteristics
genotype: mutant H3
Extracted molecule
total RNA
Extraction protocol
Mair et al., 2006
Label
Cy3
Label protocol
Agilent
Hybridization protocol
Agilent
Scan protocol
Axon
Description
samples and hybridizations done with Agilent technologies kit
Data processing
Axon GenePix
Submission date
May 31, 2006
Last update date
Oct 31, 2011
Contact name
George Dimopoulos
E-mail(s)
gdimopo1@jhu.edu
Phone
443 28 70128
Organization name
Johns Hopkins School of Public Health
Department
Molecular Microbiology and Immunology
Street address
615 N. Wolfe Street
City
Baltimore
State/province
MD
ZIP/Postal code
21205
Country
USA
Platform ID
GPL3824
Series (1)
GSE5889
Regulation of sexual development of Plasmodium by translational repression.
Data table header descriptions
ID_REF
F635 Median
F635 Median
F635 Mean
F635 Mean
F635 SD
F635 SD
F635 CV
F635 CV
B635
B635
B635 Median
B635 Median
B635 Mean
B635 Mean
B635 SD
B635 SD
B635 CV
B635 CV
% > B635+1SD
% > B635+1SD
% > B635+2SD
% > B635+2SD
F635 % Sat.
F635 % Sat.
F532 Median
F532 Median
F532 Mean
F532 Mean
F532 SD
F532 SD
F532 CV
F532 CV
B532
B532
B532 Median
B532 Median
B532 Mean
B532 Mean
B532 SD
B532 SD
B532 CV
B532 CV
% > B532+1SD
% > B532+1SD
% > B532+2SD
% > B532+2SD
F532 % Sat.
F532 % Sat.
Ratio of Medians (635/532)
Ratio of Medians (635/532)
Ratio of Means (635/532)
Ratio of Means (635/532)
Median of Ratios (635/532)
Median of Ratios (635/532)
Mean of Ratios (635/532)
Mean of Ratios (635/532)
Ratios SD (635/532)
Ratios SD (635/532)
Rgn Ratio (635/532)
Rgn Ratio (635/532)
Rgn R2 (635/532)
Rgn R2 (635/532)
F Pixels
F Pixels
B Pixels
B Pixels
Circularity
Circularity
Sum of Medians (635/532)
Sum of Medians (635/532)
Sum of Means (635/532)
Sum of Means (635/532)
VALUE
Log2 ratio
F635 Median - B635
F635 Median - B635
F532 Median - B532
F532 Median - B532
F635 Mean - B635
F635 Mean - B635
F532 Mean - B532
F532 Mean - B532
F635 Total Intensity
F635 Total Intensity
F532 Total Intensity
F532 Total Intensity
SNR 635
SNR 635
SNR 532
SNR 532
Flags
Spot Flags
Data table
ID_REF
F635 Median
F635 Mean
F635 SD
F635 CV
B635
B635 Median
B635 Mean
B635 SD
B635 CV
% > B635+1SD
% > B635+2SD
F635 % Sat.
F532 Median
F532 Mean
F532 SD
F532 CV
B532
B532 Median
B532 Mean
B532 SD
B532 CV
% > B532+1SD
% > B532+2SD
F532 % Sat.
Ratio of Medians (635/532)
Ratio of Means (635/532)
Median of Ratios (635/532)
Mean of Ratios (635/532)
Ratios SD (635/532)
Rgn Ratio (635/532)
Rgn R2 (635/532)
F Pixels
B Pixels
Circularity
Sum of Medians (635/532)
Sum of Means (635/532)
VALUE
F635 Median - B635
F532 Median - B532
F635 Mean - B635
F532 Mean - B532
F635 Total Intensity
F532 Total Intensity
SNR 635
SNR 532
Flags
PB000000.00.0
2015
2018
898
44
132
132
172
145
84
95
94
0
1306
1342
558
41
118
118
139
107
76
96
95
0
1.585
1.541
1.531
1.479
2.418
1.816
0.561
120
558
100
3071
3110
0.664
1883
1188
1886
1224
242219
161073
12.731
11.243
Bad
PB000000.01.0
34807
35140
13159
37
142
142
195
277
142
100
99
0
6431
6469
2089
32
111
111
139
115
82
100
100
0
5.485
5.505
5.692
4.96
2.132
6.167
0.821
120
557
100
40985
41356
2.455
34665
6320
34998
6358
4216785
776257
126.155
55.043
Good
PB000001.00.0
6867
7295
3129
42
134
134
184
178
96
98
97
0
5681
6015
2527
42
127
127
148
118
79
99
98
0
1.212
1.216
1.31
1.171
3.194
1.284
0.636
120
541
100
12287
13049
0.278
6733
5554
7161
5888
875391
721753
39.949
49.72
Bad
PB000001.01.0
18365
19193
6732
35
146
146
186
162
87
100
100
0
5434
5322
1992
37
124
124
149
125
83
99
97
0
3.431
3.664
3.62
3.913
2.013
3.834
0.866
120
557
100
23529
24245
1.779
18219
5310
19047
5198
2303179
638654
117.327
41.384
Good
PB000001.03.0
36069
36980
12033
32
135
135
176
153
86
100
100
0
23734
23751
8499
35
127
127
144
102
70
100
100
0
1.522
1.56
1.53
1.614
2.264
1.608
0.812
120
540
100
59541
60469
0.606
35934
23607
36845
23624
4437561
2850086
240.549
231.441
Bad
PB000002.00.0
2258
2364
1047
44
142
142
176
145
82
97
96
0
2711
2643
933
35
101
101
125
101
80
97
96
0
0.811
0.874
0.828
0.854
2.891
0.9
0.653
120
540
100
4726
4764
-0.303
2116
2610
2222
2542
283648
317218
15.09
24.931
Good
PB000002.01.0
3829
4007
1388
34
146
146
179
157
87
100
99
0
3840
3851
1402
36
111
111
142
110
77
98
98
0
0.988
1.032
1.006
1.109
2.318
1.027
0.753
120
556
100
7412
7601
-0.018
3683
3729
3861
3740
480877
462112
24.382
33.718
Bad
PB000002.02.0
3403
3224
1374
42
148
148
185
160
86
95
92
0
3364
3393
1104
32
125
125
151
117
77
99
98
0
1.005
0.941
0.946
0.837
2.273
0.993
0.753
120
540
100
6494
6344
0.007
3255
3239
3076
3268
386910
407215
18.994
27.709
Good
PB000002.03.0
9629
10077
3917
38
137
137
175
156
89
100
100
0
8061
8420
3837
45
128
128
148
111
75
98
98
0
1.197
1.199
1.147
1.322
2.177
1.143
0.804
120
556
100
17425
18232
0.259
9492
7933
9940
8292
1209238
1010365
63.474
74.523
Good
PB000003.00.0
7954
8226
4185
50
148
148
186
181
97
95
94
0
6023
6435
2161
33
112
112
143
110
76
100
100
0
1.321
1.278
1.322
1.009
3.099
1.482
0.699
120
612
100
13717
14401
0.401
7806
5911
8078
6323
987104
772218
44.42
57.2
Good
PB000003.01.0
13942
13249
5014
37
131
131
173
155
89
97
95
0
10154
9952
2758
27
128
128
151
111
73
100
100
0
1.378
1.335
1.404
1.141
2.612
1.427
0.842
120
613
100
23837
22942
0.462
13811
10026
13118
9824
1589856
1194285
84.361
88.297
Bad
PB000003.02.0
1895
2037
890
43
134
134
167
142
85
99
99
0
1275
1340
610
45
114
114
134
99
73
96
95
0
1.517
1.552
1.509
1.52
2.709
1.722
0.572
120
556
100
2922
3129
0.601
1761
1161
1903
1226
244415
160771
13.169
12.182
Bad
PB000003.03.0
5793
6136
3345
54
144
144
185
162
87
98
95
0
5558
5925
2327
39
112
112
142
107
75
99
98
0
1.037
1.031
1.037
0.936
2.107
1.147
0.685
120
596
100
11095
11805
0.053
5649
5446
5992
5813
736379
710972
36.735
54.047
Good
PB000004.00.0
3942
3947
1364
34
165
165
195
159
81
99
99
0
1809
1754
723
41
133
133
150
108
72
96
94
0
2.254
2.333
2.275
2.527
1.96
2.453
0.721
120
595
100
5453
5403
1.172
3777
1676
3782
1621
473581
210463
23.597
14.852
Bad
PB000004.01.0
33648
34171
12201
35
139
139
191
199
104
100
100
0
23272
24269
10432
42
134
134
174
329
189
100
94
0
1.448
1.41
1.358
1.657
2.564
1.393
0.837
120
554
100
56647
58167
0.534
33509
23138
34032
24135
4100539
2912284
170.754
73.237
Good
PB000004.02.0
10312
10686
3755
35
136
136
176
153
86
100
100
0
5346
5352
2319
43
115
115
140
105
75
97
95
0
1.945
2.015
1.915
2.238
2.393
2.1
0.758
120
637
100
15407
15787
0.96
10176
5231
10550
5237
1282324
642237
68.693
49.638
Good
PB000004.03.0
4710
4835
1805
37
135
135
178
162
91
100
97
0
3614
3447
1476
42
122
122
142
102
71
95
92
0
1.31
1.414
1.315
1.577
2.513
1.415
0.731
120
541
100
8067
8025
0.39
4575
3492
4700
3325
580140
413692
28.747
32.402
Bad
PB000005.00.0
1670
1750
741
42
143
143
182
158
86
99
97
0
1155
1155
498
43
114
114
139
106
76
95
92
0
1.467
1.544
1.529
1.577
1.959
1.663
0.633
120
627
100
2568
2648
0.553
1527
1041
1607
1041
209963
138604
9.924
9.585
Good
PB000005.01.0
4839
4764
1815
38
122
122
157
136
86
100
99
0
4228
4022
1771
44
104
104
130
104
80
98
96
0
1.144
1.185
1.15
1.291
2.44
1.172
0.73
120
596
100
8841
8560
0.194
4717
4124
4642
3918
571659
482630
33.875
37.423
Bad
PB000005.03.0
10769
11099
4638
41
142
142
219
557
254
96
94
0
4094
4251
1657
38
122
122
146
109
74
99
99
0
2.675
2.654
2.81
2.481
2.457
3.041
0.728
120
541
100
14599
15086
1.42
10627
3972
10957
4129
1331853
510176
19.533
37.661
Good
Total number of rows:
5283
Table truncated, full table size
1187 Kbytes
.
Supplementary data files not provided
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