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Sample GSM9082 Query DataSets for GSM9082
Status Public on Jan 20, 2004
Title c 4-2
Sample type RNA
 
Channel 1
Source name ID:c 4-2, Genotype=(C57BL/6J), 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 18580 100 393 444 158 346 493 404 6 0 0 295 318 115 252 351 301 3 0 0 1.093 1.485 1.499 2.059 2.941 1.297 0.887 80 424 90 164 0.128 47 43 98 66 -50
2 4.533779e-01 1 1 2 1 1950 18500 120 27394 30654 23902 228 427 521 100 99 0 19213 18785 13421 155 280 301 100 100 0 1.425 1.633 1.551 1.517 0.278 1.696 0.974 120 612 46224 49056 0.511 27166 19058 30426 18630 0
3 1.294795e+00 1 1 3 1 2140 18590 80 3079 3274 1506 155 159 35 100 100 0 1460 1595 664 87 91 26 100 100 0 2.130 2.068 2.061 2.185 0.884 2.033 0.920 52 339 4297 4627 1.091 2924 1373 3119 1508 0
4 -2.753841e+00 1 1 4 1 2310 18490 80 493 487 133 154 154 30 100 98 0 1719 1649 463 80 85 23 100 100 0 0.207 0.212 0.228 0.220 0.088 0.210 0.828 52 339 1978 1902 -2.273 339 1639 333 1569 0
5 -2.777390e-01 1 1 5 1 2470 18570 80 3938 3952 924 158 159 33 100 100 0 4300 4405 1256 78 83 25 100 100 0 0.895 0.877 0.891 0.909 0.181 0.841 0.963 52 339 8002 8121 -0.160 3780 4222 3794 4327 0
6 -8.106683e-02 1 1 6 1 2640 18490 80 1842 2002 644 150 151 30 100 100 0 2048 2033 790 74 78 21 100 100 0 0.857 0.945 0.920 1.064 0.570 0.887 0.930 52 340 3666 3811 -0.222 1692 1974 1852 1959 0
7 8.916508e-01 1 1 7 1 2810 18580 80 1312 1352 441 181 196 77 100 100 0 748 790 247 109 119 45 100 100 0 1.770 1.720 1.737 1.788 0.595 1.656 0.911 52 330 1770 1852 0.824 1131 639 1171 681 0
8 -3.457858e-01 1 1 8 1 2960 18490 110 4222 3400 1616 166 177 70 100 100 0 5008 4008 1937 93 134 549 95 82 0 0.825 0.826 0.831 0.853 0.258 0.736 0.870 80 533 8971 7149 -0.277 4056 4915 3234 3915 0
9 0 1 9 1 3120 18580 100 222 229 53 163 170 71 43 10 0 123 136 52 96 138 599 0 0 0 2.185 1.650 1.714 4.890 11.724 0.088 0.549 80 446 86 106 1.128 59 27 66 40 -50
10 -2.705352e-01 1 1 10 1 3290 18490 90 2584 2438 553 156 159 33 100 100 0 2930 2815 521 88 91 29 100 100 0 0.854 0.837 0.851 0.833 0.132 0.846 0.939 52 402 5270 5009 -0.227 2428 2842 2282 2727 0
11 -4.288153e-01 1 1 11 1 3450 18560 80 796 797 147 171 172 35 100 100 0 914 891 163 107 117 45 100 100 0 0.774 0.798 0.807 0.810 0.167 0.794 0.904 52 329 1432 1410 -0.369 625 807 626 784 0
12 -1.166075e+00 1 1 12 1 3610 18490 110 977 824 324 147 151 32 98 98 0 1694 1372 634 84 96 42 100 100 0 0.516 0.526 0.521 0.566 0.246 0.510 0.928 80 589 2440 1965 -0.956 830 1610 677 1288 0
13 3.387979e-02 1 1 13 1 3790 18570 70 2029 2018 240 159 162 35 100 100 0 1993 1920 323 82 87 26 100 100 0 0.979 1.011 0.983 1.044 0.233 0.972 0.947 32 236 3781 3697 -0.031 1870 1911 1859 1838 0
14 9.245374e-01 1 1 14 1 3950 18480 100 8702 7191 3256 148 151 33 100 100 0 4912 4040 1924 77 80 24 100 100 0 1.769 1.777 1.746 1.979 1.124 1.714 0.953 80 482 13389 11006 0.823 8554 4835 7043 3963 0
15 0 1 15 1 4100 18570 100 154 161 40 145 144 27 28 11 0 75 79 25 68 71 20 26 12 0 1.286 1.455 1.294 3.282 5.412 0.337 0.055 80 435 16 27 0.363 9 7 16 11 -50
16 0 1 16 1 4270 18480 100 138 139 34 137 140 28 25 2 0 67 74 25 62 66 20 23 12 0 0.200 0.167 1.677 2.830 2.977 0.100 0.005 80 480 6 14 -2.322 1 5 2 12 -50
17 0 1 17 1 4430 18570 100 143 165 89 136 139 28 31 15 0 80 107 126 63 67 19 45 23 0 0.412 0.659 0.807 1.453 1.703 0.672 0.564 80 469 24 73 -1.280 7 17 29 44 -50
18 9.218616e-01 1 1 18 1 4600 18490 80 387 400 129 140 141 28 100 98 0 208 229 92 66 69 20 100 98 0 1.739 1.595 1.605 1.844 0.905 1.343 0.767 52 339 389 423 0.799 247 142 260 163 0
19 -4.919701e-01 1 1 19 1 4770 18590 70 217 231 53 142 146 30 87 71 0 184 188 42 67 71 25 100 93 0 0.641 0.736 0.680 0.837 0.592 0.643 0.487 32 236 192 210 -0.642 75 117 89 121 0
20 -1.908215e+00 1 1 20 1 4920 18480 90 2421 2421 544 136 140 28 100 100 0 6970 6728 1968 71 77 33 100 100 0 0.331 0.343 0.344 0.358 0.095 0.314 0.939 52 414 9184 8942 -1.594 2285 6899 2285 6657 0

Total number of rows: 9568

Table truncated, full table size 1761 Kbytes.




Supplementary data files not provided
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