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Sample GSM9091 Query DataSets for GSM9091
Status Public on Jan 20, 2004
Title db/m 1-2
Sample type RNA
 
Channel 1
Source name ID:1-2, Genotype=(C57BKsJ) Lepr db/m, Treatment= none
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name common reference RNA (from mouse liver,spleen and kidney)
Organism Mus musculus
Extracted molecule total RNA
 
 
Description Total RNA from whole kidney was hybridized
Keywords = diabetes mouse models diabetic nephropathy streptozotocin db/db
 
Submission date Aug 13, 2003
Last update date May 28, 2005
Contact name Weijia Zhang
E-mail(s) [email protected]
Phone 718-430-3616
Fax 718-430-2732
URL http://www.aecom.yu.edu/BottingerLab/
Organization name Albert Einstein College of Medicine
Department Medicine
Lab Nephrology
Street address 1300 Morris Park Ave
City Bronx
State/province NY
ZIP/Postal code 10461
Country USA
 
Platform ID GPL409
Series (1)
GSE710 diabetic nephropathy streptozotocin db db

Data table header descriptions
ID_REF
VALUE log (base 2) transform of the ratio of the background subtracted means after lowess within and between chip normalization.
QUAL 1 means the quality of the spot is good, 0 means the quality of the spot is not good
Block the block number of the feature.
Column the column number of the feature.
Row the row number of the feature.
X the X-coordinate in �m of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image.
Y the Y-coordinate in �m of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image.
Dia. the diameter in �m of the feature-indicator.
F635 Median
F635 Mean
F635 SD
B635 Median
B635 Mean
B635 SD
% > B635+1SD the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #1 (635 nm).
% > B635+2SD the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #1 (635 nm).
F635 % Sat. the percentage of feature pixels at wavelength #1 that are saturated.
F532 Median median feature pixel intensity at wavelength #2 (532 nm).
F532 Mean mean feature pixel intensity at wavelength #2 (532 nm).
F532 SD the standard deviation of the feature intensity at wavelength #2 (532 nm).
B532 Median the median feature background intensity at wavelength #2 (532 nm).
B532 Mean the mean feature background intensity at wavelength #2 (532 nm).
B532 SD the standard deviation of the feature background intensity at wavelength #2 (532 nm).
% > B532+1SD the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #2 (532 nm).
% > B532+2SD the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #2 (532 nm).
F532 % Sat. the percentage of feature pixels at wavelength #2 that are saturated.
Ratio of Medians the ratio of the median intensities of each feature for each wavelength, with the median background subtracted.
Ratio of Means the ratio of the arithmetic mean intensities of each feature for each wavelength, with the median background subtracted.
Median of Ratios the median of pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Mean of Ratios the geometric mean of the pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Ratios SD the geometric standard deviation of the pixel intensity ratios.
Rgn Ratio the regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.
Rgn R.
F Pixels the total number of feature pixels.
B Pixels the total number of background pixels.
Sum of Medians the sum of the median intensities for each wavelength, with the median background subtracted.
Sum of Means the sum of the arithmetic mean intensities for each wavelength, with the median background subtracted.
Log Ratio
F635 Median - B635 the median feature pixel intensity at wavelength #1 with the median background subtracted.
F532 Median - B532 the median feature pixel intensity at wavelength #2 with the median background subtracted.
F635 Mean - B635 the mean feature pixel intensity at wavelength #1 with the median background subtracted.
F532 Mean - B532 the mean feature pixel intensity at wavelength #2 with the median background subtracted.
Flags the type of flag associated with a feature.

Data table
ID_REF VALUE QUAL Block Column Row X Y Dia. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. Ratio of Medians Ratio of Means Median of Ratios Mean of Ratios Ratios SD Rgn Ratio Rgn R. F Pixels B Pixels Sum of Medians Sum of Means Log Ratio F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 Flags
1 1 1 1 1810 17920 100 82 88 26 84 85 18 16 10 0 77 82 27 80 83 27 16 2 0 0.667 2.000 0.667 1.678 3.491 0.012 0.000 80 510 -5 6 -0.585 -2 -3 4 2 -50
2 -0.5887958588 1 1 2 1 1970 17850 90 14425 13436 3155 87 90 24 100 100 0 13714 13362 1628 78 81 22 100 100 0 1.051 1.005 1.035 0.991 0.188 1.024 0.942 52 403 27974 26633 0.072 14338 13636 13349 13284 0
3 0.5722361984 1 1 3 1 2140 17920 60 1579 1857 1267 87 91 23 100 100 0 1148 1187 744 80 81 23 100 100 0 1.397 1.599 1.429 2.169 3.147 1.441 0.775 32 176 2560 2877 0.482 1492 1068 1770 1107 0
4 -3.2798986552 1 1 4 1 2300 17840 90 288 293 64 88 90 22 100 98 0 2533 2464 438 79 81 24 100 100 0 0.081 0.086 0.088 0.086 0.023 0.084 0.860 52 414 2654 2590 -3.617 200 2454 205 2385 0
5 0.5759886403 1 1 5 1 2470 17910 70 2914 3455 1748 88 92 30 100 100 0 2335 2060 1273 81 85 26 93 90 0 1.254 1.701 1.630 4.824 9.376 1.445 0.816 32 236 5080 5346 0.326 2826 2254 3367 1979 0
6 -0.0337709708 1 1 6 1 2630 17830 70 2332 2164 1161 102 107 35 100 96 0 2269 2055 1151 89 93 31 100 96 0 1.023 1.049 0.995 1.407 1.349 1.005 0.915 32 236 4410 4028 0.033 2230 2180 2062 1966 0
7 0.5393317994 1 1 7 1 2810 17920 60 851 872 320 128 130 37 100 100 0 674 644 225 89 95 37 100 100 0 1.236 1.341 1.339 1.414 0.521 1.247 0.801 32 176 1308 1299 0.306 723 585 744 555 0
8 -0.8519696038 1 1 8 1 2960 17830 80 5574 4697 2096 110 114 31 100 100 0 7561 6587 2782 84 89 32 100 100 0 0.731 0.705 0.690 0.700 0.183 0.708 0.970 52 340 12941 11090 -0.453 5464 7477 4587 6503 0
9 -0.0791584448 1 1 9 1 3130 17920 50 146 142 35 84 88 19 91 66 0 197 203 55 84 88 27 91 83 0 0.549 0.487 0.442 0.529 0.274 0.290 0.184 12 104 175 177 -0.866 62 113 58 119 0
10 -0.3517896040 1 1 10 1 3290 17820 80 3060 2820 930 98 102 28 100 100 0 3375 3167 841 83 89 29 100 100 0 0.900 0.883 0.887 0.900 0.356 0.883 0.946 52 332 6254 5806 -0.152 2962 3292 2722 3084 0
11 0.3264299307 1 1 11 1 3460 17920 70 1054 1048 301 96 100 30 100 100 0 844 859 260 81 84 23 100 100 0 1.256 1.224 1.240 1.427 1.104 1.068 0.798 32 236 1721 1730 0.328 958 763 952 778 0
12 -1.6456556481 1 1 12 1 3620 17810 70 1116 1121 103 95 97 22 100 100 0 3271 3275 248 84 88 27 100 100 0 0.320 0.322 0.317 0.323 0.037 0.309 0.947 32 230 4208 4217 -1.642 1021 3187 1026 3191 0
13 0.2124517402 1 1 13 1 3790 17910 70 2136 2198 302 94 96 22 100 100 0 1890 1769 451 79 84 24 100 100 0 1.128 1.245 1.251 1.402 0.716 1.083 0.874 32 236 3853 3794 0.173 2042 1811 2104 1690 0
14 0.9605767890 1 1 14 1 3950 17810 90 10115 9525 2184 95 99 24 100 100 0 3750 3612 872 78 83 25 100 100 0 2.729 2.668 2.744 2.730 0.424 2.549 0.945 52 411 13692 12964 1.448 10020 3672 9430 3534 0
15 0.4929298471 1 1 15 1 4110 17910 80 5286 4447 1823 98 101 21 100 100 0 3084 2665 1326 80 82 25 100 100 0 1.727 1.682 1.723 2.061 1.197 1.528 0.909 52 340 8192 6934 0.788 5188 3004 4349 2585 0
16 -0.2712166403 1 1 16 1 4280 17820 80 2178 2084 554 100 103 22 100 100 0 2373 2320 418 83 86 25 100 100 0 0.907 0.887 0.901 0.884 0.211 0.884 0.939 52 330 4368 4221 -0.140 2078 2290 1984 2237 0
17 0 1 17 1 4440 17910 100 106 114 46 100 103 27 28 12 0 93 108 52 83 87 29 32 13 0 0.600 0.560 1.067 1.632 1.830 0.377 0.188 80 500 16 39 -0.737 6 10 14 25 -50
18 0.1064395367 1 1 18 1 4610 17820 70 496 451 135 100 105 29 100 100 0 540 495 141 84 89 31 100 100 0 0.868 0.854 0.833 0.867 0.306 0.824 0.906 32 236 852 762 -0.204 396 456 351 411 0
19 0 1 19 1 4760 17910 100 100 105 32 101 105 27 16 6 0 112 128 62 83 88 30 48 32 0 -0.034 0.089 0.459 2.405 5.389 0.131 0.042 80 533 28 49 Error -1 29 4 45 -50
20 -2.2754593932 1 1 20 1 4940 17840 80 2258 2394 1378 99 103 25 100 100 0 9834 9570 4916 85 91 36 100 100 0 0.221 0.242 0.254 0.240 0.087 0.240 0.901 52 324 11908 11780 -2.175 2159 9749 2295 9485 0

Total number of rows: 9568

Table truncated, full table size 1768 Kbytes.




Supplementary data files not provided
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