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Sample GSM9153 Query DataSets for GSM9153
Status Public on Jan 20, 2004
Title db/db 12-2
Sample type RNA
 
Channel 1
Source name ID:12-2 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 1830 18480 100 406 413 46 402 423 78 7 1 0 155 156 24 155 160 31 10 1 0 100000.000 11.000 1.467 5.889 12.733 0.755 0.116 80 511 4 12 16.610 4 0 11 1 -50
2 -0.0676425441 1 1 2 1 2010 18400 100 15705 15487 9685 396 417 84 100 97 0 14128 15899 11049 160 163 32 100 100 0 1.096 0.959 0.979 1.569 1.910 0.912 0.970 80 499 29277 30830 0.132 15309 13968 15091 15739 0
3 0.3759552856 1 1 3 1 2160 18480 80 646 834 419 388 394 57 80 73 0 493 794 586 155 157 24 90 90 0 0.763 0.698 0.745 1.136 1.893 0.688 0.883 52 328 596 1085 -0.390 258 338 446 639 0
4 0 1 4 1 2330 18400 80 395 359 120 413 434 94 9 0 0 1061 1037 418 154 158 26 100 100 0 -0.020 -0.061 0.123 0.135 0.107 -0.056 0.090 52 340 889 829 Error -18 907 -54 883 0
5 -0.1747525180 1 1 5 1 2480 18480 60 1786 1730 295 645 668 165 100 96 0 2151 2097 619 182 190 65 100 100 0 0.579 0.567 0.576 0.618 0.242 0.500 0.774 32 176 3110 3000 -0.787 1141 1969 1085 1915 0
6 -0.6987637821 1 1 6 1 2640 18380 50 960 951 129 463 479 102 100 100 0 1786 1786 364 171 229 131 100 100 0 0.308 0.302 0.278 0.308 0.081 0.295 0.749 12 98 2112 2103 -1.700 497 1615 488 1615 0
7 0.5694411048 1 1 7 1 2820 18490 90 571 572 113 387 394 49 90 76 0 347 382 190 148 150 23 88 84 0 0.925 0.791 0.922 1.502 2.591 0.597 0.499 52 414 383 419 -0.113 184 199 185 234 0
8 0.0258883110 1 1 8 1 2990 18400 80 2412 2479 811 380 386 52 100 100 0 2811 2970 1268 143 146 22 100 100 0 0.762 0.742 0.797 0.811 0.264 0.680 0.894 52 328 4700 4926 -0.393 2032 2668 2099 2827 0
9 0 1 9 1 3140 18480 100 387 367 99 376 380 49 33 7 0 174 172 29 143 146 24 56 20 0 0.355 -0.310 1.925 4.205 7.508 0.019 0.000 80 502 42 20 -1.495 11 31 -9 29 -50
10 0.0058009206 1 1 10 1 3320 18390 90 1228 1304 516 379 382 49 100 100 0 1557 1593 961 143 145 22 98 98 0 0.600 0.638 0.598 1.608 4.351 0.557 0.865 52 409 2263 2375 -0.736 849 1414 925 1450 0
11 -1.4147882251 1 1 11 1 3460 18490 90 436 437 74 383 385 44 53 32 0 588 557 207 144 145 23 98 98 0 0.119 0.131 0.222 0.389 0.458 0.085 0.079 52 403 497 467 -3.066 53 444 54 413 0
12 -0.5352876760 1 1 12 1 3640 18390 70 861 850 155 372 377 43 100 100 0 1599 1532 348 140 152 73 100 100 0 0.335 0.343 0.337 0.351 0.103 0.336 0.810 32 236 1948 1870 -1.577 489 1459 478 1392 0
13 -0.7796106407 1 1 13 1 3790 18480 70 730 726 127 371 378 50 100 100 0 1457 1485 410 138 143 27 100 100 0 0.272 0.264 0.268 0.308 0.270 0.257 0.737 32 236 1678 1702 -1.877 359 1319 355 1347 0
14 0.5002778476 1 1 14 1 3960 18390 80 3430 3404 1128 386 391 50 100 100 0 2626 2728 648 138 141 23 100 100 0 1.223 1.165 1.160 1.144 0.272 1.175 0.900 52 340 5532 5608 0.291 3044 2488 3018 2590 0
15 -0.0318389009 1 1 15 1 4120 18480 80 1117 1161 440 380 386 47 100 100 0 1409 1443 606 138 140 22 100 100 0 0.580 0.598 0.635 0.621 0.242 0.588 0.838 52 340 2008 2086 -0.786 737 1271 781 1305 0
16 -0.2665819767 1 1 16 1 4280 18390 70 1022 989 257 385 398 92 100 93 0 1540 1460 522 141 160 98 100 100 0 0.455 0.458 0.456 0.468 0.125 0.429 0.859 32 236 2036 1923 -1.135 637 1399 604 1319 0
17 0 1 17 1 4450 18470 100 383 385 42 381 389 64 8 1 0 151 155 30 140 150 65 5 0 0 0.182 0.267 1.434 2.243 3.273 0.295 0.032 80 499 13 19 -2.459 2 11 4 15 -50
18 -0.8663854515 1 1 18 1 4630 18380 70 451 444 82 376 387 61 53 28 0 418 412 115 143 145 26 100 96 0 0.273 0.253 0.464 0.587 0.494 0.221 0.159 32 236 350 337 -1.874 75 275 68 269 0
19 0 1 19 1 4780 18470 100 311 268 126 387 401 71 3 0 0 193 192 43 140 142 26 63 50 0 -1.434 -2.288 0.829 7.182 22.021 -0.976 0.144 80 505 -23 -67 Error -76 53 -119 52 -50
20 -1.1396584701 1 1 20 1 4940 18380 80 1670 1697 765 378 380 41 100 100 0 5223 5242 2792 136 138 23 100 100 0 0.254 0.258 0.251 0.259 0.061 0.267 0.941 52 330 6379 6425 -1.977 1292 5087 1319 5106 0

Total number of rows: 9568

Table truncated, full table size 1759 Kbytes.




Supplementary data files not provided
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