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Sample GSM37571 Query DataSets for GSM37571
Status Public on Dec 15, 2005
Title Sprague Dawley Diabetic 1
Sample type RNA
 
Channel 1
Source name Reference kidney total RNA
Organism Rattus norvegicus
Extracted molecule total RNA
 
Channel 2
Source name Sprague Dawley diabetic 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 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 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 bacground corrected intensity (median)
F532 Median - B532 Cy3 background corrected intensity (median)
F635 Mean - B635 Cy5 bacground 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 1810 4510 90 51 53 12 39 39 5 76 53 0 118 119 28 73 74 10 86 82 0 0.267 0.304 0.301 0.272 2.42 0.312 0.455 52 393 57 60 -1.907 12 45 14 46 0 -0.796838333
2 1800 4690 110 378 341 131 39 39 9 100 100 0 514 465 177 73 75 21 100 100 0 0.769 0.77 0.792 0.779 1.229 0.742 0.931 80 522 780 694 -0.379 339 441 302 392 0 -0.28097936
3 1810 4870 110 60 65 21 39 39 6 85 68 0 122 130 44 74 74 9 92 85 0 0.438 0.464 0.461 0.451 2.408 0.43 0.675 80 524 69 82 -1.193 21 48 26 56 0 -0.286759837
4 1800 5050 100 124 134 52 38 38 5 100 100 0 251 255 96 75 76 9 100 100 0 0.489 0.533 0.499 0.536 1.506 0.519 0.874 80 456 262 276 -1.033 86 176 96 180 0 -0.570894302
5 1810 5230 100 43 44 9 38 39 5 47 27 0 100 99 13 76 76 9 85 61 0 0.208 0.261 0.379 0.344 2.275 0.24 0.171 80 480 29 29 -2.263 5 24 6 23 0 -0.643694323
6 1800 5410 90 79 79 20 38 39 6 100 96 0 135 137 31 73 73 9 98 98 0 0.661 0.641 0.578 0.658 1.997 0.541 0.728 52 380 103 105 -0.597 41 62 41 64 0 0.097694882
7 1810 5580 90 90 89 23 38 39 5 98 94 0 180 173 43 72 73 9 98 96 0 0.481 0.505 0.491 0.5 1.711 0.451 0.783 52 388 160 152 -1.054 52 108 51 101 0 -0.471378394
8 1800 5770 110 108 110 31 38 39 6 100 98 0 188 198 57 72 74 38 97 82 0 0.603 0.571 0.586 0.568 1.529 0.351 0.484 80 536 186 198 -0.729 70 116 72 126 0 -0.187102352
9 1800 5940 100 42 43 10 39 39 5 32 20 0 85 85 13 72 75 40 3 0 0 0.231 0.308 0.547 0.548 2.603 0.011 0.006 80 500 16 17 -2.115 3 13 4 13 -50
10 1820 6130 70 41 43 10 39 39 5 34 21 0 99 98 11 75 76 10 84 62 0 0.083 0.174 0.297 0.269 4.01 0.148 0.047 32 236 26 27 -3.585 2 24 4 23 0 -1.588625493
11 1810 6310 100 51 52 12 38 38 5 76 56 0 99 104 27 74 74 9 78 65 0 0.52 0.467 0.522 0.503 2.658 0.333 0.307 80 485 38 44 -0.943 13 25 14 30 0 0.306634574
12 1810 6490 100 85 89 38 39 39 5 88 80 0 137 140 46 73 73 9 95 86 0 0.719 0.746 0.718 0.667 1.759 0.754 0.747 80 462 110 117 -0.476 46 64 50 67 0 0.202326887
13 1810 6660 100 39 40 6 38 38 5 30 5 0 87 88 10 72 72 8 77 36 0 0.067 0.125 0.4 0.374 2.607 0.05 0.006 80 480 16 18 -3.907 1 15 2 16 -50
14 1810 6850 110 122 130 46 38 44 85 50 6 0 177 191 56 73 87 222 8 0 0 0.808 0.78 0.785 0.745 1.587 0.393 0.922 80 560 188 210 -0.308 84 104 92 118 0 0.230902985
15 1800 7030 90 72 76 28 38 46 101 1 0 0 137 146 47 73 95 265 0 0 0 0.531 0.521 0.521 0.517 1.845 0.373 0.968 52 393 98 111 -0.913 34 64 38 73 0 -0.201126087
16 1820 7220 90 50 51 11 39 39 8 51 30 0 103 102 18 73 76 30 40 5 0 0.367 0.414 0.449 0.404 2.992 0.225 0.529 52 384 41 41 -1.447 11 30 12 29 0 -0.202117168
17 1820 7390 90 39 40 6 38 38 5 19 5 0 99 98 11 73 74 8 92 78 0 0.038 0.08 0.167 0.168 2.434 0.109 0.059 52 381 27 27 -4.7 1 26 2 25 0 -2.447352494
18 1810 7570 110 72 77 23 38 39 6 97 93 0 121 126 32 73 74 9 93 86 0 0.708 0.736 0.748 0.787 1.986 0.653 0.622 80 534 82 92 -0.497 34 48 39 53 0 0.26783513
19 1810 7740 100 37 38 5 38 39 5 15 2 0 74 76 8 72 73 9 25 1 0 -0.5 0 0.8 1.006 2.95 95.765 0 80 462 1 4 Error -1 2 0 4 -75
20 1880 8000 100 37 37 5 39 39 7 2 0 0 57 57 8 57 65 131 0 0 0 100000 100000 0.8 0.645 2.485 0.224 0.015 80 488 -2 -2 16.61 -2 0 -2 0 -75

Total number of rows: 23040

Table truncated, full table size 3595 Kbytes.




Supplementary data files not provided

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