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Sample GSM9168 Query DataSets for GSM9168
Status Public on Jan 20, 2004
Title db/m 2-3
Sample type RNA
 
Channel 1
Source name ID:2-3, 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 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 1880 18600 100 166 169 60 153 158 52 22 6 0 123 143 63 118 125 42 26 11 0 2.600 0.640 1.507 5.182 9.488 0.366 0.110 80 508 18 41 1.379 13 5 16 25 -50
2 -4.727717e-01 1 1 2 1 2050 18520 80 19135 18867 2529 185 190 72 100 100 0 15934 15870 1596 125 143 69 100 100 0 1.199 1.187 1.217 1.189 0.131 1.160 0.944 52 339 34759 34427 0.261 18950 15809 18682 15745 0
3 5.522821e-01 1 1 3 1 2220 18600 50 603 596 108 259 265 59 100 100 0 518 516 125 187 197 60 100 91 0 1.039 1.024 1.067 1.126 0.462 0.814 0.688 12 104 675 666 0.056 344 331 337 329 0
4 -1.207908e+00 1 1 4 1 2380 18520 80 888 914 177 261 268 56 100 100 0 1634 1776 417 149 166 75 100 100 0 0.422 0.401 0.386 0.415 0.121 0.383 0.890 52 340 2112 2280 -1.244 627 1485 653 1627 0
5 -5.135964e-01 1 1 5 1 2540 18610 80 343 388 144 255 261 56 67 38 0 454 474 183 170 196 100 84 75 0 0.310 0.438 0.413 0.471 0.347 0.415 0.464 52 334 372 437 -1.690 88 284 133 304 0
6 -1.545109e-01 1 1 6 1 2700 18510 60 1638 1716 689 212 215 44 100 100 0 1823 1871 892 121 132 50 100 96 0 0.838 0.859 0.865 1.221 1.810 0.804 0.916 32 176 3128 3254 -0.255 1426 1702 1504 1750 0
7 3.824905e-01 1 1 7 1 2860 18600 70 1551 1778 992 203 213 62 100 100 0 1169 1449 843 111 127 55 100 100 0 1.274 1.177 1.150 1.180 0.270 1.131 0.945 32 236 2406 2913 0.349 1348 1058 1575 1338 0
8 -2.335729e-01 1 1 8 1 3040 18510 80 3693 3437 1161 187 187 47 100 100 0 4123 3683 1406 99 113 52 100 100 0 0.871 0.907 0.922 1.065 0.930 0.864 0.927 52 340 7530 6834 -0.199 3506 4024 3250 3584 0
9 8.498325e-02 1 1 9 1 3190 18610 60 307 299 80 177 181 40 84 75 0 261 294 112 103 109 35 96 96 0 0.823 0.639 0.885 0.987 0.922 0.401 0.321 32 176 288 313 -0.281 130 158 122 191 0
10 2.896269e-02 1 1 10 1 3360 18500 80 1790 1766 288 194 196 40 100 100 0 1698 1730 246 101 110 43 100 100 0 0.999 0.965 0.975 0.972 0.159 0.963 0.924 52 332 3193 3201 -0.001 1596 1597 1572 1629 0
11 -1.012684e-01 1 1 11 1 3530 18600 70 770 759 201 183 179 48 100 100 0 778 856 217 96 101 35 100 100 0 0.861 0.758 0.775 0.767 0.217 0.783 0.856 32 236 1269 1336 -0.216 587 682 576 760 0
12 -5.832202e-01 1 1 12 1 3680 18500 80 7955 7092 3338 198 204 44 100 100 0 8339 7799 3659 100 115 54 100 100 0 0.941 0.895 0.927 0.977 0.402 0.856 0.894 52 332 15996 14593 -0.087 7757 8239 6894 7699 0
13 -6.162125e-01 1 1 13 1 3850 18590 70 882 883 79 183 188 34 100 100 0 1337 1307 165 106 113 37 100 100 0 0.568 0.583 0.565 0.592 0.096 0.560 0.935 32 236 1930 1901 -0.816 699 1231 700 1201 0
14 9.241474e-01 1 1 14 1 4010 18490 90 3643 3622 565 178 179 40 100 100 0 2044 2002 319 87 93 26 100 100 0 1.771 1.798 1.818 1.815 0.245 1.769 0.939 52 412 5422 5359 0.824 3465 1957 3444 1915 0
15 2.341650e-01 1 1 15 1 4180 18590 80 4068 3747 1195 187 183 43 100 100 0 3152 3034 835 92 98 30 100 100 0 1.268 1.210 1.239 1.199 0.301 1.216 0.946 52 340 6941 6502 0.343 3881 3060 3560 2942 0
16 1.556430e-02 1 1 16 1 4340 18490 80 1394 1388 354 185 179 40 100 100 0 1444 1429 238 90 95 28 100 100 0 0.893 0.898 0.885 0.886 0.189 0.919 0.931 52 332 2563 2542 -0.163 1209 1354 1203 1339 0
17 0 1 17 1 4500 18590 100 190 200 49 185 182 44 20 11 0 108 131 58 91 98 40 38 21 0 0.294 0.375 0.956 1.700 2.007 0.295 0.080 80 494 22 55 -1.766 5 17 15 40 -50
18 2.953621e-01 1 1 18 1 4680 18490 50 611 615 65 199 201 50 100 100 0 561 560 79 99 110 41 100 100 0 0.892 0.902 0.859 0.925 0.219 0.799 0.753 12 104 874 877 -0.165 412 462 416 461 0
19 0 1 19 1 4830 18580 100 191 195 42 191 188 48 17 3 0 156 167 70 87 93 30 68 52 0 0.000 0.050 0.736 1.784 3.440 0.027 0.001 80 521 69 84 Error 0 69 4 80 -50
20 -1.880962e+00 1 1 20 1 4990 18500 80 1302 1501 909 182 174 50 100 94 0 4321 4655 2624 87 92 29 100 100 0 0.265 0.289 0.280 0.279 0.127 0.296 0.908 52 334 5354 5887 -1.919 1120 4234 1319 4568 0

Total number of rows: 9568

Table truncated, full table size 1818 Kbytes.




Supplementary data files not provided
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