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Sample GSM9079 Query DataSets for GSM9079
Status Public on Jan 20, 2004
Title db/m 6-3
Sample type RNA
 
Channel 1
Source name ID:6-3, Genotype=(C57BKsJ) Lepr db/m, 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 1660 17140 100 141 140 32 151 154 37 8 1 0 143 144 25 148 152 31 6 1 0 2.000 2.750 1.333 3.944 9.215 0.313 0.038 80 481 -15 -15 1.000 -10 -5 -11 -4 -50
2 5.017980e-01 1 1 2 1 1830 17040 110 30400 30075 8409 166 175 51 100 100 0 14875 14376 3885 155 159 30 100 100 0 2.054 2.103 2.112 2.116 0.315 2.056 0.958 80 572 44954 44130 1.038 30234 14720 29909 14221 0
3 3.407650e-01 1 1 3 1 2000 17150 110 1841 2327 1441 164 169 46 100 100 0 1268 1458 783 156 158 21 100 100 0 1.508 1.661 1.622 1.647 0.397 1.696 0.973 80 481 2789 3465 0.593 1677 1112 2163 1302 0
4 -3.394553e+00 1 1 4 1 2160 17050 100 206 216 75 163 167 35 53 36 0 651 617 207 154 156 22 96 95 0 0.087 0.114 0.144 0.185 0.270 0.134 0.346 80 489 540 516 -3.531 43 497 53 463 0
5 -4.213320e-01 1 1 5 1 2330 17130 110 2107 1828 734 175 180 39 96 95 0 2032 1773 712 156 161 28 93 93 0 1.030 1.022 1.019 1.157 0.782 0.997 0.944 80 506 3808 3270 0.042 1932 1876 1653 1617 0
6 -5.318958e-01 1 1 6 1 2490 17050 100 952 877 354 159 163 33 100 100 0 1077 998 455 149 151 19 100 100 0 0.855 0.846 0.843 0.951 0.491 0.782 0.909 80 482 1721 1567 -0.227 793 928 718 849 0
7 3.376802e-01 1 1 7 1 2660 17140 90 467 465 132 160 164 31 98 96 0 415 408 103 157 157 19 98 94 0 1.190 1.215 1.239 1.266 0.380 1.149 0.876 52 382 565 556 0.251 307 258 305 251 0
8 -6.697702e-01 1 1 8 1 2810 17050 110 2020 1833 639 156 159 33 97 97 0 2196 2036 673 157 159 23 97 97 0 0.914 0.892 0.918 0.924 0.290 0.871 0.928 80 539 3903 3556 -0.129 1864 2039 1677 1879 0
9 3.018199e-01 1 1 9 1 2970 17150 100 386 403 133 149 161 221 58 8 0 378 389 112 159 178 272 32 0 0 1.082 1.104 1.092 1.177 0.786 1.055 0.875 80 413 456 484 0.114 237 219 254 230 0
10 -3.498364e-01 1 1 10 1 3140 17040 110 1455 1306 619 128 139 191 90 85 0 1494 1334 517 144 157 234 91 91 0 0.983 0.990 0.995 0.979 0.377 0.998 0.927 80 570 2677 2368 -0.025 1327 1350 1178 1190 0
11 -1.794115e-01 1 1 11 1 3300 17140 100 519 499 121 140 143 30 100 98 0 546 538 115 152 153 21 100 100 0 0.962 0.930 0.940 0.941 0.234 0.904 0.893 80 412 773 745 -0.056 379 394 359 386 0
12 -1.265849e+00 1 1 12 1 3450 17030 110 517 501 144 140 144 34 97 96 0 883 861 241 146 147 20 100 100 0 0.512 0.505 0.508 0.528 0.253 0.498 0.885 80 553 1114 1076 -0.967 377 737 361 715 0
13 -2.012814e-01 1 1 13 1 3620 17130 100 893 871 283 149 154 34 100 100 0 851 848 256 149 150 19 100 100 0 1.060 1.033 1.028 1.044 0.248 1.000 0.931 80 459 1446 1421 0.084 744 702 722 699 0
14 5.899965e-01 1 1 14 1 3780 17030 100 4743 4376 1632 155 159 32 100 100 0 2322 2172 836 144 145 20 98 98 0 2.107 2.081 2.101 2.222 0.829 2.013 0.945 80 478 6766 6249 1.075 4588 2178 4221 2028 0
15 6.074674e-01 1 1 15 1 3930 17120 90 1015 1172 1097 161 217 252 61 59 0 587 729 714 147 171 119 63 59 0 1.941 1.737 1.415 1.609 0.793 1.574 0.851 52 383 1294 1593 0.957 854 440 1011 582 0
16 -9.537938e-02 1 1 16 1 4110 17030 100 1116 1105 309 141 158 129 100 100 0 1001 988 200 139 145 54 100 100 0 1.131 1.135 1.140 1.132 0.239 1.151 0.904 80 514 1837 1813 0.178 975 862 964 849 0
17 8.502003e-01 1 1 17 1 4280 17120 110 922 861 235 149 152 31 100 100 0 533 517 130 141 142 18 100 100 0 1.972 1.894 1.876 1.986 0.601 1.800 0.918 80 498 1165 1088 0.980 773 392 712 376 0
18 2.762783e-01 1 1 18 1 4440 17030 110 443 438 108 149 153 31 98 97 0 396 387 80 138 139 18 97 97 0 1.140 1.161 1.160 1.200 0.389 1.065 0.833 80 548 552 538 0.188 294 258 289 249 0
19 8.438805e-01 1 1 19 1 4610 17120 100 274 268 61 153 155 32 90 77 0 224 225 45 143 144 19 91 85 0 1.494 1.402 1.395 1.605 1.087 0.975 0.500 80 457 202 197 0.579 121 81 115 82 0
20 -2.182211e+00 1 1 20 1 4770 17030 110 1966 1897 397 145 148 31 100 100 0 5062 4922 915 140 142 21 100 100 0 0.370 0.366 0.370 0.367 0.047 0.362 0.949 80 542 6743 6534 -1.435 1821 4922 1752 4782 0

Total number of rows: 9568

Table truncated, full table size 1789 Kbytes.




Supplementary data files not provided
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