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Sample GSM37576 Query DataSets for GSM37576
Status Public on Dec 15, 2005
Title Ren-2 Diabetic 2
Sample type RNA
 
Channel 1
Source name Ren-2 diabetic kidney total RNA
Organism Rattus norvegicus
Extracted molecule total RNA
 
Channel 2
Source name Reference kidney total RNA
Organism Rattus norvegicus
Extracted molecule total RNA
 
 
Description Sprague Dawley compared to Ren-2 study
 
Submission date Dec 14, 2004
Last update date May 29, 2005
Contact name Maria Schache
E-mail(s) mschache@svi.edu.au
Phone 613 9288 2670
Organization name St Vincents Institute
Department
Street address
City Melbourne
ZIP/Postal code 3052
Country Australia
 
Platform ID GPL1747
Series (1)
GSE2068 Sprague Dawley vs Ren-2

Data table header descriptions
ID_REF
X X coordinate
Y Y coordinate
Dia. Spot diameter
CH1_RAW Cy5 intensity (median)
F635 Mean Cy5 intensity (mean)
CH1_SD Cy5 intensity stdev
CH1_BKD_RAW Cy5 background (median)
B635 Mean Cy5 background (mean)
CH1_BKD_SD Cy5 background stdev
% > B635+1SD Cy5 background error 1
% > B635+2SD Cy5 background error 2
F635 % Sat. Cy5 percentage of saturated pixels
CH2_RAW Cy3 intensity (median)
F532 Mean Cy3 intensity (mean)
CH2_SD Cy3 intensity stdev
CH2_BKD_RAW Cy3 background (median)
B532 Mean Cy3 background (mean)
CH2_BKD_SD Cy3 background stdev
% > B532+1SD Cy3 background error 1
% > B532+2SD Cy3 background error 2
F532 % Sat. Cy3 percentage of saturated pixels
Ratio of Medians (635/532) Ratio of medians
Ratio of Means (635/532) Ratio of means
Median of Ratios (635/532) Median of ratios
Mean of Ratios (635/532) Mean of ratios
Ratios SD (635/532) Ratio stdev
Rgn Ratio (635/532) Regression ratio
Rgn R? (635/532) Regression ratio squared
F Pixels Foreground pixels
B Pixels Background pixels
Sum of Medians Sum of medians
Sum of Means Sum of means
Log Ratio (635/532) Log ratio Cy5/Cy3 (genepix)
F635 Median - B635 Cy5 background corrected intensity (median)
F532 Median - B532 Cy3 background corrected intensity (median)
F635 Mean - B635 Cy5 background corrected intensity (mean)
F532 Mean - B532 Cy3 background corrected intensity (mean)
Flags Spot quality
VALUE Log2 normalised ratio Cy5/Cy3

Data table
ID_REF X Y Dia. CH1_RAW F635 Mean CH1_SD CH1_BKD_RAW B635 Mean CH1_BKD_SD % > B635+1SD % > B635+2SD F635 % Sat. CH2_RAW F532 Mean CH2_SD CH2_BKD_RAW B532 Mean CH2_BKD_SD % > 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 R? (635/532) F Pixels B Pixels Sum of Medians Sum of Means Log Ratio (635/532) F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 Flags VALUE
1 1760 3240 120 81 91 39 51 53 11 75 58 0 107 124 53 60 61 8 93 85 0 0.638 0.625 0.641 0.659 2.249 0.643 0.602 120 653 77 104 -0.648 30 47 40 64 0 0.497534153
2 1940 3250 110 76 90 45 52 54 12 58 48 0 105 119 46 61 62 8 90 77 0 0.545 0.655 0.696 0.71 2.001 0.797 0.571 80 505 68 96 -0.876 24 44 38 58 0 -0.502621855
3 2120 3250 110 105 109 40 53 54 11 88 76 0 187 200 74 61 63 10 100 100 0 0.413 0.403 0.351 0.329 2.259 0.391 0.649 80 536 178 195 -1.276 52 126 56 139 0 0.085532075
4 2310 3250 110 107 114 39 54 55 12 88 83 0 171 204 72 61 63 12 100 100 0 0.482 0.42 0.441 0.368 2.132 0.423 0.732 80 539 163 203 -1.053 53 110 60 143 0 0.262822008
5 2480 3200 60 56 61 19 54 56 13 25 15 0 70 77 20 67 69 16 18 12 0 0.667 0.7 1.467 1.25 4.448 0.41 0.068 32 122 5 17 -0.584 2 3 7 10 0 0.686336822
6 2650 3240 100 53 55 14 53 54 12 21 6 0 77 78 15 60 62 10 62 31 0 0 0.111 0.8 0.64 3.048 0.754 0.05 80 473 17 20 Error 0 17 2 18 -50
7 2830 3240 110 62 70 31 52 53 12 45 32 0 92 102 32 60 61 8 93 81 0 0.313 0.429 0.548 0.506 2.234 0.609 0.355 80 531 42 60 -1.676 10 32 18 42 0 0.346703151
8 3020 3250 120 60 63 20 52 53 11 42 23 0 93 102 32 60 60 8 92 81 0 0.242 0.262 0.359 0.379 2.774 0.362 0.264 120 614 41 53 -2.047 8 33 11 42 0 -0.017498448
9 3200 3250 110 255 262 59 51 53 11 100 100 0 182 184 44 60 61 8 100 100 0 1.672 1.702 1.739 1.756 1.366 1.671 0.859 80 490 326 335 0.742 204 122 211 124 0 -0.508063944
10 3380 3250 110 239 241 54 52 53 12 100 100 0 162 176 46 60 62 37 100 82 0 1.833 1.629 1.666 1.681 1.455 1.315 0.483 80 524 289 305 0.874 187 102 189 116 0 0
11 3560 3240 110 584 613 207 54 55 21 100 100 0 242 254 70 60 76 262 18 0 0 2.912 2.881 2.8 2.865 1.335 0.555 0.097 80 548 712 753 1.542 530 182 559 194 0 0.604370548
12 3750 3250 110 634 640 141 53 55 21 100 100 0 253 266 60 61 77 265 16 0 0 3.026 2.863 2.953 2.898 1.276 2.865 0.898 80 523 773 792 1.597 581 192 587 205 0 -0.376281927
13 3920 3240 100 53 54 13 52 53 11 20 7 0 75 76 13 62 63 9 61 30 0 0.077 0.143 0.83 0.877 3.94 3.324 0.003 80 440 14 16 -3.699 1 13 2 14 -50
14 4110 3250 120 54 55 14 51 52 12 22 9 0 81 84 17 62 64 10 70 46 0 0.158 0.182 0.5 0.558 3.273 0.323 0.016 120 605 22 26 -2.662 3 19 4 22 0 -0.147268812
15 4280 3250 110 67 67 17 51 52 10 58 37 0 115 116 20 60 61 8 100 100 0 0.291 0.286 0.338 0.295 2.379 0.319 0.241 80 502 71 72 -1.781 16 55 16 56 0 0.374870028
16 4470 3250 100 68 70 17 51 52 10 63 42 0 112 113 18 59 59 7 100 98 0 0.321 0.352 0.402 0.34 2.253 0.399 0.298 80 442 70 73 -1.639 17 53 19 54 0 0.664618096
17 4640 3250 120 67 71 21 50 51 11 64 41 0 106 114 38 59 60 7 95 85 0 0.362 0.382 0.445 0.425 2.865 0.375 0.366 120 565 64 76 -1.466 17 47 21 55 0 0
18 4830 3250 120 67 70 21 51 52 11 61 37 0 107 116 40 60 61 8 92 84 0 0.34 0.339 0.397 0.436 2.653 0.337 0.362 120 561 63 75 -1.556 16 47 19 56 0 -0.355590359
19 5000 3240 110 220 322 210 52 53 11 100 100 0 272 398 245 60 61 8 100 100 0 0.792 0.799 0.815 0.753 1.454 0.797 0.936 80 502 380 608 -0.336 168 212 270 338 0 0.625464507
20 5190 3250 110 413 429 216 52 53 11 100 100 0 505 547 269 60 61 8 100 100 0 0.811 0.774 0.762 0.767 1.232 0.798 0.943 80 518 806 864 -0.302 361 445 377 487 0 0

Total number of rows: 23040

Table truncated, full table size 3556 Kbytes.




Supplementary data files not provided

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