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Sample GSM37572 Query DataSets for GSM37572
Status Public on Dec 15, 2005
Title Sprague Dawley Control 2
Sample type RNA
 
Channel 1
Source name Sprague Dawley control 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 bacground corrected (median)
F532 Median - B532 Cy3 background corrrected (median)
F635 Mean - B635 Cy5 bacground corrected (mean)
F532 Mean - B532 Cy3 background corrrected (mean)
Flags Spot quality
VALUE Log2 normalised ratio

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 1840 4640 90 63 65 19 41 41 6 73 67 0 108 144 194 67 67 7 94 92 0 0.537 0.312 0.465 0.405 2.473 0.079 0.193 52 392 63 101 -0.898 22 41 24 77 0 -0.114032652
2 1850 4810 110 365 347 109 40 41 6 100 100 0 615 555 175 65 66 7 100 100 0 0.591 0.627 0.62 0.632 1.24 0.62 0.958 80 536 875 797 -0.759 325 550 307 490 0 -0.142042226
3 1840 5000 110 73 83 31 40 40 6 96 91 0 119 133 42 66 66 7 98 96 0 0.623 0.642 0.631 0.593 1.841 0.652 0.761 80 534 86 110 -0.684 33 53 43 67 0 0.030673828
4 1840 5170 110 179 172 58 40 40 6 100 98 0 236 235 74 66 66 7 98 98 0 0.818 0.781 0.772 0.782 1.376 0.764 0.894 80 543 309 301 -0.29 139 170 132 169 0 0.272445397
5 1850 5360 70 49 51 10 40 41 7 59 31 0 87 87 10 66 66 7 84 78 0 0.429 0.524 0.693 0.552 2.884 0.32 0.105 32 236 30 32 -1.222 9 21 11 21 0 0.096102697
6 1840 5530 90 112 112 30 40 41 6 96 96 0 136 154 174 65 65 6 98 98 0 1.014 0.809 1.136 0.975 1.964 0.108 0.083 52 403 143 161 0.02 72 71 72 89 0 0.647275254
7 1850 5710 110 96 95 31 40 41 6 95 90 0 152 151 40 65 65 6 98 96 0 0.644 0.64 0.652 0.606 1.772 0.638 0.743 80 570 143 141 -0.636 56 87 55 86 0 -0.006161079
8 1840 5900 100 103 104 36 40 41 6 95 91 0 174 173 53 64 64 7 100 100 0 0.573 0.587 0.541 0.528 1.731 0.152 0.197 80 497 173 173 -0.804 63 110 64 109 0 -0.195920093
9 1850 6080 60 50 50 12 41 41 6 56 37 0 96 97 19 65 65 7 90 84 0 0.29 0.281 0.372 0.319 2.491 0.338 0.336 32 176 40 41 -1.784 9 31 9 32 0 -0.642378829
10 1830 6260 100 41 42 7 40 40 6 23 10 0 74 77 13 65 65 6 60 36 0 0.111 0.167 0.5 0.532 3.599 0.113 0.011 80 496 10 14 -3.17 1 9 2 12 0 -0.129040817
11 1850 6440 100 54 58 17 40 41 6 77 57 0 95 97 20 64 64 7 93 86 0 0.452 0.545 0.61 0.49 2.306 0.618 0.557 80 464 45 51 -1.147 14 31 18 33 0 -0.148514244
12 1850 6620 100 101 104 37 40 41 6 95 92 0 178 178 59 65 65 7 98 97 0 0.54 0.566 0.56 0.527 1.884 0.557 0.829 80 452 174 177 -0.889 61 113 64 113 0 -0.280834692
13 1840 6790 100 42 43 8 41 41 6 25 7 0 79 78 10 66 66 7 68 46 0 0.077 0.167 0.594 0.494 3.149 0.309 0.052 80 482 14 14 -3.7 1 13 2 12 -50
14 1850 6980 110 132 133 37 40 41 6 100 100 0 207 205 47 64 65 7 100 100 0 0.643 0.66 0.68 0.645 1.46 0.668 0.82 80 517 235 234 -0.636 92 143 93 141 0 -0.071489181
15 1840 7160 120 53 55 15 40 40 6 66 50 0 83 90 25 63 64 7 75 60 0 0.65 0.556 0.606 0.582 2.743 0.526 0.487 120 605 33 42 -0.621 13 20 15 27 0 0.549310411
16 1850 7340 100 60 63 20 40 40 6 85 66 0 101 102 30 63 64 6 86 81 0 0.526 0.59 0.595 0.657 2.473 0.562 0.543 80 467 58 62 -0.926 20 38 23 39 0 -0.102155726
17 1840 7520 80 40 41 7 41 41 6 15 5 0 80 79 9 63 64 7 78 55 0 -0.059 0 0.483 0.453 3.115 0.145 0.021 52 320 16 16 Error -1 17 0 16 0 0
18 1850 7700 100 101 99 21 40 41 6 98 98 0 159 159 43 63 64 7 98 98 0 0.635 0.615 0.619 0.643 1.463 0.579 0.839 80 462 157 155 -0.654 61 96 59 96 0 -0.033548026
19 1840 7870 100 37 38 6 41 41 6 3 3 0 65 64 6 63 71 87 0 0 0 -2 -3 0.95 0.917 2.528 0.398 0.013 80 444 -2 -2 Error -4 2 -3 1 -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 3586 Kbytes.




Supplementary data files not provided

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