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Sample GSM9173 Query DataSets for GSM9173
Status Public on Jan 20, 2004
Title db/db 8-3
Sample type RNA
 
Channel 1
Source name ID:8-3, 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 18, 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 1790 18580 100 88 91 19 95 96 21 11 1 0 75 77 15 75 77 19 13 0 0 100000.000 -2.000 1.435 2.763 3.982 -0.116 0.007 80 524 -7 -2 16.610 -7 0 -4 2 -50
2 -2.423069e+00 1 1 2 1 1970 18500 80 2094 2211 842 96 98 22 100 100 0 14557 13715 2938 71 74 20 100 100 0 0.138 0.155 0.132 0.180 0.166 0.147 0.672 52 340 16484 15759 -2.858 1998 14486 2115 13644 0
3 3.644848e-01 1 1 3 1 2120 18580 60 236 306 154 93 96 35 96 87 0 273 336 186 74 78 35 96 87 0 0.719 0.813 0.871 0.943 0.525 0.718 0.826 32 176 342 475 -0.477 143 199 213 262 0
4 -2.436636e+00 1 1 4 1 2290 18490 90 97 102 28 91 92 20 34 15 0 425 414 113 69 71 14 100 98 0 0.017 0.032 0.074 0.146 0.274 0.029 0.032 52 420 362 356 -5.891 6 356 11 345 0
5 1.355234e-01 1 1 5 1 2450 18570 60 410 408 189 92 93 19 100 100 0 414 501 298 69 71 14 100 100 0 0.922 0.731 0.831 0.802 0.240 0.668 0.904 32 176 663 748 -0.118 318 345 316 432 0
6 -3.624650e-01 1 1 6 1 2610 18480 60 222 236 80 94 97 26 96 93 0 383 388 164 70 74 26 100 100 0 0.409 0.447 0.431 0.519 0.329 0.394 0.713 32 170 441 460 -1.290 128 313 142 318 0
7 1.120982e+00 1 1 7 1 2770 18590 60 165 182 66 92 93 21 93 65 0 155 172 74 70 70 14 90 81 0 0.859 0.882 0.815 1.033 0.716 0.810 0.702 32 176 158 192 -0.220 73 85 90 102 0
8 -1.255326e-01 1 1 8 1 2940 18480 70 859 827 191 98 102 27 100 100 0 1123 1069 183 72 74 19 100 100 0 0.724 0.731 0.726 0.737 0.172 0.739 0.908 32 236 1812 1726 -0.466 761 1051 729 997 0
9 0 1 9 1 3100 18570 100 102 104 31 99 100 23 18 8 0 90 102 41 69 71 16 57 35 0 0.143 0.152 0.793 2.014 3.682 0.386 0.194 80 536 24 38 -2.807 3 21 5 33 -50
10 -3.083526e-02 1 1 10 1 3280 18480 80 458 467 94 100 101 21 100 100 0 613 607 108 72 72 15 100 100 0 0.662 0.686 0.675 0.703 0.217 0.659 0.884 52 332 899 902 -0.596 358 541 367 535 0
11 2.808576e-01 1 1 11 1 3440 18580 70 142 147 38 104 106 23 65 46 0 203 196 46 71 71 15 100 100 0 0.288 0.344 0.408 0.476 0.323 0.275 0.215 32 236 170 168 -1.796 38 132 43 125 0
12 -1.586807e+00 1 1 12 1 3580 18490 50 160 166 31 108 113 29 91 33 0 472 456 57 74 85 56 100 100 0 0.131 0.152 0.126 0.152 0.086 0.180 0.601 12 104 450 440 -2.936 52 398 58 382 0
13 -1.153839e+00 1 1 13 1 3760 18580 70 191 198 42 109 111 23 96 84 0 454 457 50 70 70 14 100 100 0 0.214 0.230 0.204 0.237 0.119 0.236 0.611 32 236 466 476 -2.227 82 384 89 387 0
14 2.093727e-01 1 1 14 1 3920 18480 80 850 817 165 112 112 23 100 100 0 808 827 162 67 69 13 100 100 0 0.996 0.928 0.912 0.939 0.190 0.909 0.919 52 340 1479 1465 -0.006 738 741 705 760 0
15 9.720612e-02 1 1 15 1 4090 18570 80 509 519 146 111 113 24 98 98 0 608 598 180 69 70 14 100 100 0 0.738 0.771 0.766 0.835 0.448 0.747 0.900 52 340 937 937 -0.438 398 539 408 529 0
16 -2.244863e-01 1 1 16 1 4250 18470 70 330 333 58 114 115 25 100 100 0 487 474 60 71 72 14 100 100 0 0.519 0.543 0.518 0.554 0.175 0.545 0.846 32 230 632 622 -0.946 216 416 219 403 0
17 0 1 17 1 4410 18570 100 109 112 26 116 116 24 12 5 0 79 86 32 69 71 17 35 13 0 -0.700 -0.235 0.795 2.024 2.753 0.146 0.017 80 497 3 13 Error -7 10 -4 17 -50
18 9.299344e-01 1 1 18 1 4580 18470 60 146 145 37 110 114 24 62 40 0 156 163 59 73 73 15 87 87 0 0.434 0.389 0.685 0.857 0.697 0.196 0.089 32 170 119 125 -1.205 36 83 35 90 0
19 0 1 19 1 4740 18570 100 100 100 33 117 120 24 8 0 0 92 99 30 70 72 14 61 43 0 -0.773 -0.586 1.000 2.604 4.372 -0.455 0.127 80 498 5 12 Error -17 22 -17 29 -50
20 -1.734349e+00 1 1 20 1 4900 18480 80 447 440 195 122 125 25 96 90 0 1466 1629 912 69 71 14 100 100 0 0.233 0.204 0.196 0.214 0.089 0.203 0.919 52 338 1722 1878 -2.104 325 1397 318 1560 0

Total number of rows: 9568

Table truncated, full table size 1712 Kbytes.




Supplementary data files not provided
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