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Sample GSM37569 Query DataSets for GSM37569
Status Public on Dec 15, 2005
Title Sprague Dawley Control 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 control 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 1880 4570 80 52 55 18 39 39 5 76 57 0 82 89 21 60 61 15 67 36 0 0.591 0.552 0.579 0.629 2.337 0.499 0.455 52 326 35 45 -0.759 13 22 16 29 0 -0.429526885
2 1880 4760 110 317 295 82 39 39 6 100 100 0 500 481 164 60 61 14 100 100 0 0.632 0.608 0.627 0.631 1.242 0.58 0.938 80 558 718 677 -0.662 278 440 256 421 0 -0.340504883
3 1870 4950 110 67 71 23 39 39 6 90 82 0 156 169 69 59 60 11 97 96 0 0.289 0.291 0.338 0.281 2.436 0.24 0.483 80 528 125 142 -1.793 28 97 32 110 0 -1.176211238
4 1870 5130 110 132 139 49 38 39 6 100 100 0 258 267 91 59 60 9 100 100 0 0.472 0.486 0.487 0.479 1.523 0.477 0.873 80 516 293 309 -1.082 94 199 101 208 0 -0.562958316
5 1870 5310 100 45 45 8 38 39 6 50 26 0 79 83 16 59 61 11 78 45 0 0.35 0.292 0.407 0.452 2.506 0.249 0.141 80 498 27 31 -1.515 7 20 7 24 0 -1.428427859
6 1880 5490 90 78 78 17 39 39 5 96 96 0 173 169 43 59 59 7 100 100 0 0.342 0.355 0.361 0.338 1.748 0.346 0.759 52 363 153 149 -1.547 39 114 39 110 0 -0.948470308
7 1880 5660 100 69 73 27 39 39 5 90 85 0 129 143 121 59 59 7 97 93 0 0.429 0.405 0.417 0.414 2.345 0.155 0.83 80 474 100 118 -1.222 30 70 34 84 0 -0.649421462
8 1880 5850 100 92 98 27 39 39 5 100 98 0 160 161 48 58 59 7 98 97 0 0.52 0.573 0.564 0.609 1.814 0.553 0.849 80 486 155 162 -0.945 53 102 59 103 0 -0.345881331
9 1880 6020 60 53 57 16 39 39 5 68 62 0 81 81 15 59 59 6 81 68 0 0.636 0.818 0.807 0.658 2.463 0.93 0.447 32 176 36 40 -0.652 14 22 18 22 0 -0.304977677
10 1880 6200 80 42 44 9 38 39 5 46 23 0 76 104 63 58 58 7 88 61 0 0.222 0.13 0.306 0.266 3.495 0.049 0.064 52 340 22 52 -2.17 4 18 6 46 0 -2.250019792
11 1870 6380 90 52 55 15 39 39 5 82 59 0 97 102 29 58 61 21 80 42 0 0.333 0.364 0.432 0.426 2.065 0.343 0.421 52 406 52 60 -1.585 13 39 16 44 0 -1.158771161
12 1880 6570 90 93 98 24 39 39 5 100 100 0 181 173 51 58 60 21 96 88 0 0.439 0.513 0.539 0.544 1.588 0.446 0.729 52 400 177 174 -1.188 54 123 59 115 0 -0.60102316
13 1890 6750 90 41 42 7 38 39 5 28 17 0 77 82 22 57 58 8 90 67 0 0.15 0.16 0.223 0.244 3.361 0.12 0.076 52 379 23 29 -2.737 3 20 4 25 0 -2.850146715
14 1880 6920 120 95 105 43 38 39 5 99 95 0 149 162 68 57 59 11 95 90 0 0.62 0.638 0.652 0.66 1.773 0.609 0.813 120 606 149 172 -0.691 57 92 67 105 0 -0.092163567
15 1880 7100 110 53 54 13 38 39 5 76 60 0 90 96 30 57 58 9 88 72 0 0.455 0.41 0.388 0.423 2.77 0.287 0.318 80 528 48 55 -1.138 15 33 16 39 0 -0.713431965
16 1890 7290 110 58 61 17 38 39 7 82 65 0 105 113 34 57 64 95 11 0 0 0.417 0.411 0.398 0.386 2.148 0.418 0.662 80 538 68 79 -1.263 20 48 23 56 0 -0.807631418
17 1900 7460 70 39 39 5 38 39 7 12 0 0 81 84 18 59 60 16 75 21 0 0.045 0.04 0.261 0.23 2.046 0.048 0.014 32 230 23 26 -4.459 1 22 1 25 0 -4.866749645
18 1880 7650 110 73 74 20 38 39 5 97 91 0 131 136 47 56 58 10 100 95 0 0.467 0.45 0.467 0.458 1.953 0.377 0.616 80 556 110 116 -1.1 35 75 36 80 0 -0.484445239
19 1880 7820 100 37 37 5 38 39 7 5 0 0 59 59 6 56 65 137 0 0 0 -0.333 -0.333 0.75 0.712 3.108 0.064 0.006 80 444 2 2 Error -1 3 -1 3 -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 3547 Kbytes.




Supplementary data files not provided

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