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Sample GSM9165 Query DataSets for GSM9165
Status Public on Jan 20, 2004
Title db/db 8-5
Sample type RNA
 
Channel 1
Source name ID:8-5, Genotype=(C57BKsJ) Lepr db/db, 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 18, 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 1970 18670 100 127 129 23 127 131 29 12 2 0 76 78 20 75 77 17 17 5 0 0.000 0.667 1.250 2.096 2.544 0.253 0.026 80 502 1 5 Error 0 1 2 3 -50
2 -9.024828e-02 1 1 2 1 2130 18580 90 24409 23620 4326 125 147 192 100 100 0 18696 18819 1212 77 81 28 100 100 0 1.304 1.254 1.309 1.250 0.206 1.281 0.939 52 411 42903 42237 0.383 24284 18619 23495 18742 0
3 7.542782e-01 1 1 3 1 2310 18680 70 2269 2580 1383 132 133 26 100 100 0 1525 1650 993 76 79 15 100 100 0 1.475 1.555 1.610 1.741 0.573 1.435 0.910 32 236 3586 4022 0.561 2137 1449 2448 1574 0
4 -3.529585e+00 1 1 4 1 2460 18580 80 228 229 64 124 126 22 96 84 0 1211 1214 161 74 75 14 100 100 0 0.091 0.092 0.094 0.094 0.052 0.093 0.493 52 340 1241 1245 -3.451 104 1137 105 1140 0
5 1.587906e-01 1 1 5 1 2630 18660 70 2287 2116 760 125 127 24 100 100 0 2098 1939 782 76 80 20 100 100 0 1.069 1.069 1.100 1.101 0.208 1.025 0.953 32 236 4184 3854 0.097 2162 2022 1991 1863 0
6 -5.430856e-01 1 1 6 1 2800 18570 70 819 814 298 121 123 22 100 100 0 1214 1153 459 74 76 15 100 100 0 0.612 0.642 0.629 0.709 0.330 0.598 0.858 32 236 1838 1772 -0.708 698 1140 693 1079 0
7 5.415563e-01 1 1 7 1 2950 18680 60 647 589 229 130 132 22 100 100 0 500 464 194 76 79 17 100 100 0 1.219 1.183 1.195 1.230 0.355 1.147 0.886 32 176 941 847 0.286 517 424 459 388 0
8 -3.708488e-02 1 1 8 1 3120 18580 80 3336 2976 1197 125 127 26 100 100 0 3260 3053 986 72 75 15 100 100 0 1.007 0.956 0.970 0.947 0.288 0.961 0.919 52 340 6399 5832 0.010 3211 3188 2851 2981 0
9 -3.183821e-01 1 1 9 1 3280 18680 80 231 236 50 129 131 25 94 90 0 196 221 79 72 74 14 100 100 0 0.823 0.718 0.721 0.951 0.732 0.535 0.511 52 340 226 256 -0.282 102 124 107 149 0
10 -4.649658e-01 1 1 10 1 3440 18570 80 1139 1094 348 133 137 30 100 100 0 1493 1435 262 75 77 18 100 100 0 0.709 0.707 0.717 0.688 0.193 0.736 0.887 52 332 2424 2321 -0.495 1006 1418 961 1360 0
11 1.991163e-01 1 1 11 1 3610 18660 70 609 619 162 136 140 27 100 100 0 571 577 167 77 81 19 100 100 0 0.957 0.966 0.970 1.025 0.398 0.905 0.848 32 236 967 983 -0.063 473 494 483 500 0
12 -1.705037e+00 1 1 12 1 3770 18570 80 504 504 157 128 133 28 100 100 0 1323 1299 338 73 75 18 100 100 0 0.301 0.307 0.294 0.313 0.129 0.297 0.824 52 332 1626 1602 -1.733 376 1250 376 1226 0
13 -5.079596e-01 1 1 13 1 3930 18660 80 769 738 236 131 133 25 100 100 0 1055 1011 316 73 75 16 100 100 0 0.650 0.647 0.694 0.666 0.222 0.628 0.859 52 340 1620 1545 -0.622 638 982 607 938 0
14 4.606207e-01 1 1 14 1 4090 18560 90 2218 2150 552 127 133 52 100 100 0 1635 1643 276 74 78 18 100 100 0 1.340 1.289 1.315 1.281 0.291 1.332 0.921 52 411 3652 3592 0.422 2091 1561 2023 1569 0
15 3.258778e-02 1 1 15 1 4260 18650 80 1532 1419 373 136 141 32 100 100 0 1498 1387 348 75 80 27 100 100 0 0.981 0.978 1.010 1.018 0.357 0.949 0.924 52 340 2819 2595 -0.028 1396 1423 1283 1312 0
16 -1.829257e-01 1 1 16 1 4430 18560 80 940 957 150 134 139 39 100 100 0 1145 1097 259 78 88 48 100 100 0 0.755 0.808 0.790 0.861 0.282 0.753 0.920 52 320 1873 1842 -0.405 806 1067 823 1019 0
17 0 1 17 1 4590 18660 100 169 179 51 146 152 40 35 13 0 93 111 49 79 86 42 25 12 0 1.643 1.031 1.402 2.779 5.070 0.654 0.284 80 520 37 65 0.716 23 14 33 32 -50
18 -1.681627e-01 1 1 18 1 4750 18570 60 304 317 61 150 160 55 100 84 0 285 294 84 82 86 32 100 93 0 0.759 0.788 0.846 0.928 0.503 0.677 0.573 32 170 357 379 -0.399 154 203 167 212 0
19 0 1 19 1 4920 18660 100 153 149 42 144 148 33 21 7 0 121 122 34 79 82 20 70 51 0 0.214 0.116 0.773 2.090 4.685 0.212 0.031 80 525 51 48 -2.222 9 42 5 43 -50
20 -2.077104e+00 1 1 20 1 5070 18570 80 1241 1289 814 132 137 29 100 98 0 3883 4427 2834 76 80 25 100 100 0 0.291 0.266 0.258 0.262 0.104 0.263 0.921 52 324 4916 5508 -1.779 1109 3807 1157 4351 0

Total number of rows: 9568

Table truncated, full table size 1796 Kbytes.




Supplementary data files not provided
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