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Sample GSM9092 Query DataSets for GSM9092
Status Public on Jan 20, 2004
Title db/m 1-1
Sample type RNA
 
Channel 1
Source name ID:1-1, 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 1900 18420 100 86 92 28 89 92 27 21 5 0 82 82 19 79 83 23 11 2 0 -1.000 1.000 2.100 1.287 4.399 5.336 0.011 80 520 0 6 Error -3 3 3 3 -50
2 -2.387927e-01 1 1 2 1 2080 18350 90 19087 18826 2816 84 87 26 100 100 0 12457 11856 2654 78 82 23 100 100 0 1.535 1.591 1.543 1.636 1.273 1.559 0.966 52 409 31382 30520 0.618 19003 12379 18742 11778 0
3 4.263960e-01 1 1 3 1 2240 18420 60 994 1107 671 84 90 32 100 100 0 505 614 336 81 86 27 100 100 0 2.146 1.919 1.994 1.826 1.549 1.988 0.913 32 176 1334 1556 1.102 910 424 1023 533 0
4 -3.298452e+00 1 1 4 1 2410 18350 80 132 136 31 77 81 27 84 50 0 823 801 218 75 78 23 100 100 0 0.074 0.081 0.079 0.074 1.834 0.073 0.392 52 330 803 785 -3.766 55 748 59 726 0
5 2.833010e-01 1 1 5 1 2550 18420 70 1759 1965 1087 71 75 22 100 100 0 1008 1109 524 72 74 19 100 100 0 1.803 1.826 1.622 1.704 1.431 1.947 0.910 32 235 2624 2931 0.851 1688 936 1894 1037 0
6 -1.246652e-02 1 1 6 1 2720 18340 70 825 840 345 71 75 23 100 100 0 655 642 246 72 73 19 100 100 0 1.293 1.349 1.317 1.364 1.355 1.416 0.862 32 236 1337 1339 0.371 754 583 769 570 0
7 7.280880e-01 1 1 7 1 2890 18420 70 352 372 121 73 76 24 100 100 0 206 239 83 78 82 27 93 93 0 2.180 1.857 1.925 2.090 2.094 1.925 0.654 32 236 407 460 1.124 279 128 299 161 0
8 -5.759697e-01 1 1 8 1 3070 18330 90 2880 2634 976 71 75 25 100 100 0 3037 2646 1091 73 76 22 100 100 0 0.948 0.996 1.011 1.067 1.643 0.975 0.924 52 418 5773 5136 -0.077 2809 2964 2563 2573 0
9 2.540576e-01 1 1 9 1 3220 18420 70 103 108 34 68 71 24 62 37 0 126 126 33 71 73 18 81 71 0 0.636 0.727 0.640 0.762 3.135 1.471 0.065 32 236 90 95 -0.652 35 55 40 55 0
10 -2.799716e-01 1 1 10 1 3390 18330 80 1788 1751 349 70 73 21 100 100 0 1497 1487 386 71 71 18 100 100 0 1.205 1.187 1.161 1.214 1.294 1.165 0.928 52 340 3144 3097 0.269 1718 1426 1681 1416 0
11 1.475304e-01 1 1 11 1 3550 18420 70 525 519 127 71 74 20 100 100 0 389 379 126 68 70 18 96 96 0 1.414 1.441 1.476 1.583 1.908 1.479 0.749 32 236 775 759 0.5 454 321 448 311 0
12 -1.525171e+00 1 1 12 1 3720 18330 80 462 464 107 70 73 20 100 100 0 1134 1039 331 67 68 18 100 100 0 0.367 0.405 0.407 0.426 1.497 0.373 0.866 52 340 1459 1366 -1.445 392 1067 394 972 0
13 9.949563e-02 1 1 13 1 3890 18420 80 1137 1021 483 70 74 21 100 100 0 752 706 361 69 72 22 98 92 0 1.562 1.493 1.589 1.748 2.022 1.488 0.886 52 340 1750 1588 0.644 1067 683 951 637 0
14 8.985747e-01 1 1 14 1 4050 18320 100 5367 4731 2293 72 74 21 100 100 0 1777 1530 709 71 73 21 95 95 0 3.104 3.193 3.238 3.500 1.887 3.268 0.952 80 513 7001 6118 1.634 5295 1706 4659 1459 0
15 3.499571e-01 1 1 15 1 4210 18410 90 3320 2815 1346 71 74 22 100 100 0 1673 1444 715 72 74 19 100 100 0 2.029 2.000 2.104 2.078 1.423 1.998 0.941 52 410 4850 4116 1.021 3249 1601 2744 1372 0
16 -2.490620e-01 1 1 16 1 4380 18320 80 1194 1130 291 74 75 22 100 100 0 1066 996 270 75 76 19 100 100 0 1.130 1.147 1.135 1.156 1.309 1.150 0.912 52 328 2111 1977 0.177 1120 991 1056 921 0
17 0 1 17 1 4530 18420 100 73 78 23 73 76 21 23 6 0 78 81 22 73 75 19 26 7 0 0.000 0.625 1.360 1.251 3.995 2.308 0.016 80 466 5 13 Error 0 5 5 8 -50
18 3.473276e-01 1 1 18 1 4700 18320 60 306 302 103 72 75 21 100 96 0 248 244 63 73 75 21 100 96 0 1.337 1.345 1.280 1.287 1.773 1.542 0.657 32 170 409 401 0.419 234 175 230 171 0
19 0 1 19 1 4860 18420 100 66 69 24 70 73 18 15 7 0 86 88 29 68 70 17 51 26 0 -0.222 -0.050 0.649 0.781 3.679 0.399 0.013 80 508 14 19 Error -4 18 -1 20 -50
20 -2.002771e+00 1 1 20 1 5020 18340 80 1242 1512 1054 68 70 17 100 100 0 3891 4540 3053 65 67 16 100 100 0 0.307 0.323 0.318 0.304 1.328 0.324 0.942 52 335 5000 5919 -1.704 1174 3826 1444 4475 0

Total number of rows: 9568

Table truncated, full table size 1734 Kbytes.




Supplementary data files not provided
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