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Sample GSM9074 Query DataSets for GSM9074
Status Public on Jan 20, 2004
Title db/db 13-5
Sample type RNA
 
Channel 1
Source name ID:13-5, 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 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 2380 16720 100 127 130 41 117 130 62 10 0 0 171 176 49 163 172 50 22 0 0 1.250 1.000 0.785 1.670 2.883 0.483 0.244 80 503 18 26 0.322 10 8 13 13 -50
2 4.568362e-01 1 1 2 1 2540 16620 110 11096 12838 7554 129 145 72 100 100 0 5659 6021 3534 166 176 53 97 97 0 1.997 2.171 2.147 2.535 1.356 2.088 0.917 80 574 16460 18564 0.998 10967 5493 12709 5855 0
3 3.878333e-01 1 1 3 1 2720 16740 110 1193 1302 700 121 137 72 96 96 0 810 905 541 148 157 47 95 90 0 1.619 1.560 1.611 2.201 1.985 1.359 0.891 80 444 1734 1938 0.695 1072 662 1181 757 0
4 -4.069877e+00 1 1 4 1 2870 16640 100 137 146 44 107 119 48 35 12 0 688 684 235 143 151 42 96 95 0 0.055 0.072 0.084 0.155 0.318 0.068 0.169 80 465 575 580 -4.184 30 545 39 541 0
5 -2.242164e-01 1 1 5 1 3030 16710 100 664 792 475 92 100 37 97 95 0 713 811 446 122 129 33 96 92 0 0.968 1.016 1.024 1.049 0.420 0.994 0.922 80 468 1163 1389 -0.047 572 591 700 689 0
6 -6.664672e-01 1 1 6 1 3200 16650 100 235 254 117 92 102 40 87 76 0 383 388 185 125 133 35 91 87 0 0.554 0.616 0.611 1.072 3.438 0.531 0.688 80 483 401 425 -0.852 143 258 162 263 0
7 0 1 7 1 3360 16720 100 152 165 78 91 98 34 56 46 0 193 194 67 129 137 39 65 35 0 0.953 1.138 1.014 1.372 1.508 0.574 0.315 80 441 125 139 -0.069 61 64 74 65 -50
8 -9.901000e-02 1 1 8 1 3530 16640 120 2213 2382 1273 95 102 35 100 97 0 1953 1971 989 142 149 38 100 98 0 1.170 1.250 1.219 1.327 0.605 1.226 0.941 120 643 3929 4116 0.227 2118 1811 2287 1829 0
9 6.474915e-01 1 1 9 1 3700 16730 100 296 318 207 103 110 37 90 86 0 314 307 112 159 163 36 82 75 0 1.245 1.453 1.127 1.931 4.988 0.957 0.367 80 408 348 363 0.316 193 155 215 148 0
10 -1.195686e-01 1 1 10 1 3850 16630 110 1488 1360 542 97 109 55 96 95 0 1380 1271 515 152 158 35 95 95 0 1.133 1.129 1.156 1.199 0.473 1.085 0.904 80 536 2619 2382 0.180 1391 1228 1263 1119 0
11 -1.038558e-01 1 1 11 1 4020 16730 110 318 316 106 100 113 44 91 87 0 413 398 126 166 170 33 95 90 0 0.883 0.931 0.838 1.076 0.890 0.738 0.614 80 422 465 448 -0.180 218 247 216 232 0
12 -1.361687e+00 1 1 12 1 4180 16630 110 213 201 70 96 102 31 82 75 0 467 443 186 161 166 31 85 85 0 0.382 0.372 0.355 0.485 0.795 0.299 0.579 80 516 423 387 -1.388 117 306 105 282 0
13 -3.674666e-01 1 1 13 1 4340 16720 110 493 467 205 99 108 35 90 86 0 626 595 235 163 167 30 90 87 0 0.851 0.852 0.811 0.845 0.344 0.757 0.824 80 425 857 800 -0.233 394 463 368 432 0
14 6.309046e-01 1 1 14 1 4490 16620 120 2505 2415 1178 99 106 31 100 97 0 1326 1325 644 158 162 28 95 95 0 2.060 1.985 1.963 3.310 6.175 1.843 0.904 120 633 3574 3483 1.043 2406 1168 2316 1167 0
15 3.146098e-02 1 1 15 1 4670 16710 110 1125 1070 428 102 109 36 100 96 0 972 962 358 165 172 41 95 92 0 1.268 1.215 1.177 1.291 0.477 1.153 0.919 80 520 1830 1765 0.343 1023 807 968 797 0
16 -1.625371e-01 1 1 16 1 4840 16620 110 633 564 226 117 131 62 85 85 0 697 620 252 173 181 45 87 87 0 0.985 1.000 0.997 1.687 5.678 0.905 0.868 80 560 1040 894 -0.022 516 524 447 447 0
17 8.729578e-01 1 1 17 1 5000 16720 110 420 396 124 122 133 50 90 87 0 356 345 103 184 193 45 85 80 0 1.733 1.702 1.564 2.006 1.702 1.212 0.664 80 488 470 435 0.793 298 172 274 161 0
18 6.383966e-01 1 1 18 1 5160 16630 110 293 275 90 125 134 45 85 75 0 312 297 89 183 190 35 80 75 0 1.302 1.316 1.218 1.451 1.084 0.837 0.484 80 542 297 264 0.381 168 129 150 114 0
19 0 1 19 1 5320 16720 100 133 135 40 126 132 41 17 2 0 241 229 61 186 192 38 61 25 0 0.127 0.209 0.517 0.777 1.568 0.224 0.067 80 460 62 52 -2.977 7 55 9 43 -50
20 -1.368431e+00 1 1 20 1 5490 16640 110 2451 2255 745 120 129 41 100 100 0 4370 4065 1320 186 190 37 100 100 0 0.557 0.550 0.549 0.589 0.294 0.536 0.926 80 557 6515 6014 -0.844 2331 4184 2135 3879 0

Total number of rows: 9568

Table truncated, full table size 1784 Kbytes.




Supplementary data files not provided
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