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Sample GSM9167 Query DataSets for GSM9167
Status Public on Jan 20, 2004
Title db/m 2-2
Sample type RNA
 
Channel 1
Source name ID:2-2, 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 1930 18510 100 205 210 35 203 201 48 12 0 0 81 84 19 84 87 27 3 1 0 -0.667 100000.000 1.444 2.003 2.104 0.585 0.068 80 492 -1 7 Error 2 -3 7 0 -50
2 -2.477884e-01 1 1 2 1 2110 18430 90 28902 28442 4284 205 207 48 100 100 0 17312 17024 2310 84 89 29 100 100 0 1.666 1.667 1.668 1.668 0.124 1.630 0.979 52 411 45925 45177 0.736 28697 17228 28237 16940 0
3 1.757761e-01 1 1 3 1 2260 18520 70 2729 3342 2306 201 198 54 100 100 0 2151 2537 1657 83 91 32 100 100 0 1.222 1.280 1.224 1.233 0.446 1.283 0.931 32 236 4596 5595 0.290 2528 2068 3141 2454 0
4 -2.839028e+00 1 1 4 1 2430 18430 80 316 327 72 211 215 48 86 53 0 1907 1915 332 82 86 25 100 100 0 0.058 0.063 0.056 0.069 0.044 0.061 0.462 52 340 1930 1949 -4.119 105 1825 116 1833 0
5 -3.412650e-02 1 1 5 1 2600 18510 70 2567 2459 926 208 212 47 100 100 0 2219 2282 1023 82 89 29 100 100 0 1.104 1.023 1.062 1.101 0.323 0.965 0.939 32 236 4496 4451 0.143 2359 2137 2251 2200 0
6 -2.935312e-01 1 1 6 1 2760 18420 70 2328 2512 938 215 215 44 100 100 0 2968 2829 1154 86 92 32 100 100 0 0.733 0.837 0.830 0.855 0.179 0.820 0.958 32 236 4995 5040 -0.448 2113 2882 2297 2743 0
7 8.714600e-01 1 1 7 1 2920 18520 70 1054 1042 308 218 239 136 100 100 0 604 587 186 87 95 44 100 100 0 1.617 1.648 1.713 1.713 0.444 1.575 0.867 32 236 1353 1324 0.693 836 517 824 500 0
8 -4.152311e-01 1 1 8 1 3090 18420 80 4610 4220 1322 229 225 48 100 100 0 5300 4769 1549 83 88 19 100 100 0 0.840 0.852 0.845 0.868 0.234 0.844 0.977 52 328 9598 8677 -0.252 4381 5217 3991 4686 0
9 0 1 9 1 3240 18500 100 222 226 62 241 245 58 12 1 0 112 120 45 87 98 83 11 1 0 -0.760 -0.455 1.344 3.667 6.881 0.131 0.009 80 491 6 18 Error -19 25 -15 33 -50
10 1.401450e-01 1 1 10 1 3410 18410 80 2874 2863 526 242 247 72 100 100 0 2268 2272 402 87 104 101 100 100 0 1.207 1.200 1.199 1.216 0.223 1.192 0.942 52 332 4813 4806 0.271 2632 2181 2621 2185 0
11 3.554636e-02 1 1 11 1 3570 18500 70 796 776 219 230 228 48 100 93 0 835 778 203 84 87 20 100 100 0 0.754 0.787 0.718 0.784 0.287 0.788 0.847 32 236 1317 1240 -0.408 566 751 546 694 0
12 -1.177619e+00 1 1 12 1 3740 18410 70 590 584 126 227 229 44 100 100 0 1379 1378 271 100 110 39 100 100 0 0.284 0.279 0.273 0.276 0.067 0.291 0.874 32 236 1642 1635 -1.817 363 1279 357 1278 0
13 -4.324122e-01 1 1 13 1 3900 18500 70 917 934 122 222 225 44 100 100 0 1357 1376 205 109 116 36 100 100 0 0.557 0.562 0.566 0.571 0.114 0.508 0.868 32 236 1943 1979 -0.845 695 1248 712 1267 0
14 4.087813e-01 1 1 14 1 4070 18400 90 3524 3429 647 244 244 49 100 100 0 2345 2179 576 110 117 35 100 100 0 1.468 1.539 1.564 1.659 0.542 1.491 0.968 52 418 5515 5254 0.553 3280 2235 3185 2069 0
15 6.371437e-01 1 1 15 1 4220 18490 70 3300 3111 607 253 288 192 100 100 0 1686 1695 221 126 137 65 100 100 0 1.953 1.822 1.858 1.808 0.293 1.809 0.927 32 236 4607 4427 0.966 3047 1560 2858 1569 0
16 3.709615e-01 1 1 16 1 4400 18400 80 1228 1243 203 194 198 51 100 100 0 1042 1037 191 114 121 38 100 100 0 1.114 1.137 1.119 1.159 0.215 1.114 0.934 52 324 1962 1972 0.156 1034 928 1049 923 0
17 0 1 17 1 4550 18490 100 209 226 72 207 212 54 20 11 0 125 140 53 108 116 39 28 10 0 0.118 0.594 1.063 2.074 2.165 0.527 0.237 80 481 19 51 -3.087 2 17 19 32 -50
18 5.968277e-01 1 1 18 1 4710 18400 70 449 441 89 219 225 43 96 90 0 380 362 102 108 121 46 96 93 0 0.846 0.874 0.847 0.964 0.449 0.781 0.634 32 236 502 476 -0.242 230 272 222 254 0
19 0 1 19 1 4880 18490 100 192 217 157 223 225 55 7 5 0 179 690 4267 119 134 63 47 11 0 -0.517 -0.011 0.977 2.963 6.373 0.017 0.147 80 519 29 565 Error -31 60 -6 571 -50
20 -1.434604e+00 1 1 20 1 5060 18380 160 291 728 970 211 222 86 48 33 0 461 2205 4053 107 144 164 62 52 0 0.226 0.246 0.273 0.682 1.309 0.199 0.680 208 1098 434 2615 -2.146 80 354 517 2098 0

Total number of rows: 9568

Table truncated, full table size 1784 Kbytes.




Supplementary data files not provided
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