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Sample GSM9087 Query DataSets for GSM9087
Status Public on Jan 20, 2004
Title c 1-2
Sample type RNA
 
Channel 1
Source name ID:c 1-2, 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 1560 18550 100 167 166 27 167 168 23 15 6 0 62 64 13 61 63 14 17 6 0 0.000 -0.333 2.333 4.515 6.421 0.037 0.000 80 494 1 2 Error 0 1 -1 3 -50
2 0.0563695483 1 1 2 1 1730 18480 100 19482 17711 6633 171 174 24 100 100 0 20282 18185 5852 66 69 18 100 100 0 0.955 0.968 1.010 0.945 0.196 0.979 0.967 80 488 39527 35659 -0.066 19311 20216 17540 18119 0
3 1.0208169305 1 1 3 1 1900 18570 80 754 748 295 166 168 24 98 98 0 298 332 157 61 63 14 100 98 0 2.481 2.148 2.323 2.414 1.059 1.901 0.878 52 340 825 853 1.311 588 237 582 271 0
4 -0.8796850648 1 1 4 1 2070 18470 80 374 361 51 165 167 25 100 100 0 496 536 185 62 64 17 100 98 0 0.482 0.414 0.420 0.520 0.483 0.348 0.759 52 340 643 670 -1.054 209 434 196 474 0
5 -0.1162612291 1 1 5 1 2220 18550 70 836 883 261 168 170 37 100 100 0 901 997 373 61 64 20 100 100 0 0.795 0.764 0.761 0.797 0.209 0.699 0.896 32 236 1508 1651 -0.331 668 840 715 936 0
6 0.2056154774 1 1 6 1 2390 18460 80 506 493 148 161 161 27 100 96 0 358 369 170 58 61 17 96 94 0 1.150 1.068 1.096 1.412 1.035 0.935 0.843 52 332 645 643 0.202 345 300 332 311 0
7 0.7933282505 1 1 7 1 2560 18560 70 380 413 121 161 160 35 93 93 0 179 197 75 57 69 143 40 3 0 1.795 1.800 1.783 1.957 0.976 1.447 0.745 32 236 341 392 0.844 219 122 252 140 0
8 0.0670092349 1 1 8 1 2710 18460 90 1743 1788 267 168 170 25 100 100 0 1746 1775 404 60 63 16 100 100 0 0.934 0.945 0.947 1.030 0.505 0.877 0.916 52 411 3261 3335 -0.098 1575 1686 1620 1715 0
9 0 1 9 1 2870 18550 100 195 196 40 166 168 26 53 30 0 73 78 21 58 63 27 30 8 0 1.933 1.500 1.478 5.185 9.368 0.374 0.039 80 485 44 50 0.951 29 15 30 20 -50
10 -0.0986387274 1 1 10 1 3040 18460 80 774 725 136 170 169 25 100 100 0 777 774 131 59 62 16 100 100 0 0.841 0.776 0.827 0.791 0.196 0.732 0.866 52 332 1322 1270 -0.249 604 718 555 715 0
11 -0.2028407570 1 1 11 1 3200 18550 80 328 341 54 170 169 22 100 100 0 265 273 79 58 60 14 100 100 0 0.763 0.795 0.805 0.903 0.506 0.732 0.766 52 340 365 386 -0.390 158 207 171 215 0
12 -0.0726036153 1 1 12 1 3360 18460 90 662 640 103 169 171 25 100 100 0 657 648 133 60 63 16 100 100 0 0.826 0.801 0.838 0.853 0.296 0.637 0.742 52 417 1090 1059 -0.276 493 597 471 588 0
13 -0.2715503240 1 1 13 1 3530 18560 70 524 532 93 168 169 26 100 100 0 616 607 156 56 60 17 100 100 0 0.636 0.661 0.690 0.707 0.254 0.600 0.782 32 236 916 915 -0.654 356 560 364 551 0
14 0.1532753422 1 1 14 1 3690 18460 90 1705 1657 422 163 164 28 100 100 0 1548 1515 363 57 60 17 100 100 0 1.034 1.025 1.024 1.028 0.179 1.019 0.920 52 411 3033 2952 0.049 1542 1491 1494 1458 0
15 0 1 15 1 3850 18550 100 159 160 23 164 165 36 5 0 0 54 57 13 56 59 16 15 0 0 2.500 -4.000 1.625 2.980 3.523 -0.029 0.000 80 462 -7 -3 1.322 -5 -2 -4 1 -50
16 0 1 16 1 4020 18460 100 155 156 25 163 164 25 8 2 0 56 58 14 54 57 14 18 3 0 -4.000 -1.750 2.000 4.118 5.072 -0.043 0.001 80 486 -6 -3 Error -8 2 -7 4 -50
17 0 1 17 1 4180 18560 100 165 168 27 163 165 26 20 5 0 55 57 15 55 58 14 12 8 0 100000.000 2.500 1.979 3.439 4.634 0.125 0.005 80 454 2 7 16.610 2 0 5 2 -50
18 0.4092768389 1 1 18 1 4360 18470 60 224 232 44 162 164 25 93 71 0 88 93 22 53 56 13 90 65 0 1.771 1.750 1.480 3.019 4.887 0.915 0.269 32 176 97 110 0.825 62 35 70 40 0
19 0 1 19 1 4510 18560 100 178 186 44 169 171 29 35 12 0 66 70 17 59 63 22 23 2 0 1.286 1.545 2.033 4.186 7.775 0.471 0.060 80 442 16 28 0.363 9 7 17 11 -50
20 -1.2214535289 1 1 20 1 4680 18460 80 818 817 218 167 168 28 100 100 0 2117 2238 712 58 60 14 100 100 0 0.316 0.298 0.299 0.302 0.057 0.290 0.931 52 332 2710 2830 -1.661 651 2059 650 2180 0

Total number of rows: 9568

Table truncated, full table size 1685 Kbytes.




Supplementary data files not provided
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