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Sample GSM9151 Query DataSets for GSM9151
Status Public on Jan 20, 2004
Title db/db 11-5
Sample type RNA
 
Channel 1
Source name ID:11-5, 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 15, 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 1900 18620 100 183 184 26 190 194 32 7 0 0 127 131 25 132 134 26 13 1 0 1.400 6.000 0.864 2.018 2.872 0.223 0.035 80 520 -12 -7 0.485 -7 -5 -6 -1 -50
2 -3.781495e-03 1 1 2 1 2070 18530 80 41858 42395 13301 185 190 37 100 100 0 18794 19374 4522 130 134 27 100 100 0 2.233 2.193 2.306 2.168 0.416 2.219 0.958 52 340 60337 61454 1.159 41673 18664 42210 19244 0
3 5.383068e-01 1 1 3 1 2240 18620 80 1023 1231 629 171 172 28 100 100 0 651 805 441 127 130 23 100 100 0 1.626 1.563 1.560 1.646 0.483 1.449 0.912 52 338 1376 1738 0.701 852 524 1060 678 0
4 -2.926150e+00 1 1 4 1 2400 18530 80 245 246 73 161 163 24 76 59 0 1162 1256 551 122 124 23 100 100 0 0.081 0.075 0.074 0.087 0.058 0.081 0.598 52 335 1124 1219 -3.630 84 1040 85 1134 0
5 -1.018213e-01 1 1 5 1 2550 18610 90 2538 2431 1346 159 161 26 98 98 0 1988 2061 1140 123 126 24 100 100 0 1.276 1.172 1.168 1.207 0.417 1.146 0.940 52 405 4244 4210 0.351 2379 1865 2272 1938 0
6 -4.881087e-01 1 1 6 1 2720 18530 80 313 333 100 156 157 25 98 92 0 402 459 189 123 127 23 100 98 0 0.563 0.527 0.549 0.577 0.261 0.502 0.827 52 340 436 513 -0.830 157 279 177 336 0
7 7.005015e-01 1 1 7 1 2890 18620 80 596 652 256 158 157 25 100 100 0 380 440 202 125 127 24 100 96 0 1.718 1.568 1.678 1.825 0.881 1.332 0.810 52 340 693 809 0.780 438 255 494 315 0
8 -2.963741e-01 1 1 8 1 3050 18520 80 2964 3192 1068 158 159 25 100 100 0 2730 3050 971 130 131 23 100 100 0 1.079 1.039 1.032 1.044 0.190 1.018 0.934 52 332 5406 5954 0.110 2806 2600 3034 2920 0
9 -5.440138e-01 1 1 9 1 3210 18610 80 199 195 32 152 154 25 73 46 0 226 231 57 126 128 22 92 80 0 0.470 0.410 0.672 0.983 1.545 0.312 0.260 52 340 147 148 -1.089 47 100 43 105 0
10 4.454643e-02 1 1 10 1 3380 18510 80 1586 1642 611 147 150 24 100 100 0 1348 1365 496 128 130 24 100 100 0 1.180 1.209 1.258 1.236 0.270 1.160 0.907 52 332 2659 2732 0.238 1439 1220 1495 1237 0
11 -2.371202e-01 1 1 11 1 3530 18610 70 590 692 290 142 162 96 100 90 0 886 840 297 129 138 59 100 93 0 0.592 0.774 0.743 0.876 0.468 0.830 0.815 32 236 1205 1261 -0.757 448 757 550 711 0
12 -1.280628e+00 1 1 12 1 3710 18510 80 684 732 277 144 147 25 100 100 0 1553 1746 639 120 122 24 100 100 0 0.377 0.362 0.365 0.364 0.119 0.346 0.843 52 332 1973 2214 -1.408 540 1433 588 1626 0
13 -1.517514e-01 1 1 13 1 3880 18610 90 926 930 364 142 142 21 100 98 0 1092 1019 436 122 123 22 100 100 0 0.808 0.878 0.864 0.922 0.309 0.840 0.924 52 400 1754 1685 -0.307 784 970 788 897 0
14 -3.833154e-02 1 1 14 1 4030 18510 80 4938 4946 1226 139 141 23 100 100 0 3555 3721 877 122 123 23 100 100 0 1.398 1.336 1.310 1.348 0.224 1.322 0.907 52 332 8232 8406 0.483 4799 3433 4807 3599 0
15 2.128192e-01 1 1 15 1 4190 18600 90 2133 2224 745 153 158 72 100 100 0 1507 1542 482 119 123 51 100 100 0 1.427 1.455 1.387 1.474 0.305 1.394 0.904 52 415 3368 3494 0.512 1980 1388 2071 1423 0
16 1.097102e-01 1 1 16 1 4360 18520 80 1704 1630 682 153 154 40 100 100 0 1203 1289 433 118 122 31 100 100 0 1.429 1.261 1.325 1.242 0.377 1.243 0.890 52 340 2636 2648 0.516 1551 1085 1477 1171 0
17 9.181958e-01 1 1 17 1 4530 18600 50 256 364 190 150 152 27 100 91 0 239 258 123 124 125 22 75 58 0 0.922 1.597 2.320 4.215 7.470 1.223 0.651 12 104 221 348 -0.118 106 115 214 134 0
18 5.983492e-01 1 1 18 1 4680 18500 80 607 596 151 145 148 25 100 100 0 447 428 123 116 118 21 100 100 0 1.396 1.446 1.523 1.572 0.498 1.365 0.845 52 326 793 763 0.481 462 331 451 312 0
19 0 1 19 1 4850 18600 90 139 145 36 146 147 24 25 9 0 202 202 25 119 121 21 100 94 0 -0.084 -0.012 0.367 0.418 0.270 0.038 0.003 52 415 76 82 Error -7 83 -1 83 0
20 -1.603840e+00 1 1 20 1 5010 18500 80 2169 2124 993 146 148 27 100 100 0 5825 5742 2705 119 122 41 100 100 0 0.355 0.352 0.352 0.356 0.091 0.353 0.953 52 332 7729 7601 -1.496 2023 5706 1978 5623 0

Total number of rows: 9568

Table truncated, full table size 1777 Kbytes.




Supplementary data files not provided
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