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Sample GSM9145 Query DataSets for GSM9145
Status Public on Jan 20, 2004
Title db/db 8-4
Sample type RNA
 
Channel 1
Source name ID:8-4, 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 1880 19570 100 236 246 60 217 225 54 31 13 0 222 224 34 233 234 43 8 1 0 -1.727 -3.222 1.875 3.491 4.588 0.000 0.000 80 516 8 20 Error 19 -11 29 -9 -50
2 2.786933e-02 1 1 2 1 2050 19470 100 31314 27125 14784 230 239 58 98 97 0 18674 15860 8786 230 235 44 100 96 0 1.685 1.721 1.736 2.134 1.683 1.678 0.964 80 516 49528 42525 0.753 31084 18444 26895 15630 0
3 7.632933e-01 1 1 3 1 2200 19560 70 634 731 319 232 244 78 96 90 0 561 619 204 246 256 59 100 96 0 1.276 1.338 1.374 1.458 0.691 1.378 0.816 32 236 717 872 0.352 402 315 499 373 0
4 0 1 4 1 2390 19470 90 278 271 61 240 280 166 3 0 0 944 889 327 249 295 225 86 69 0 0.055 0.048 0.095 0.649 2.883 0.051 0.044 52 418 733 671 -4.193 38 695 31 640 0
5 6.604025e-02 1 1 5 1 2540 19580 80 1168 1252 754 221 230 57 96 90 0 1082 1227 706 219 226 44 96 92 0 1.097 1.023 0.965 1.123 0.895 0.985 0.914 52 340 1810 2039 0.134 947 863 1031 1008 0
6 -1.433873e-01 1 1 6 1 2700 19480 80 484 568 255 216 234 139 82 50 0 609 773 379 247 274 209 71 48 0 0.740 0.669 0.679 0.866 0.747 0.599 0.736 52 340 630 878 -0.434 268 362 352 526 0
7 8.076344e-01 1 1 7 1 2860 19570 80 386 412 156 223 228 51 78 69 0 391 429 122 242 246 43 96 78 0 1.094 1.011 1.068 1.191 0.763 0.833 0.533 52 340 312 376 0.130 163 149 189 187 0
8 6.744280e-02 1 1 8 1 3030 19480 100 1518 1803 1027 222 227 50 98 97 0 1376 1717 987 217 220 44 95 95 0 1.118 1.054 1.081 1.190 0.547 1.017 0.938 80 482 2455 3081 0.161 1296 1159 1581 1500 0
9 0 1 9 1 3190 19560 100 241 246 64 230 234 52 26 7 0 235 233 62 212 218 54 23 8 0 0.478 0.762 1.270 4.195 13.304 -0.067 0.005 80 479 34 37 -1.064 11 23 16 21 -50
10 -2.478482e-01 1 1 10 1 3350 19470 80 1293 1175 396 233 240 50 100 100 0 1576 1377 497 211 215 46 100 100 0 0.777 0.808 0.763 0.905 0.455 0.750 0.855 52 338 2425 2108 -0.365 1060 1365 942 1166 0
11 -2.124524e-01 1 1 11 1 3520 19580 60 506 516 104 213 217 73 100 93 0 698 694 118 208 214 51 100 100 0 0.598 0.623 0.647 0.653 0.249 0.565 0.615 32 176 783 789 -0.742 293 490 303 486 0
12 -2.183361e+00 1 1 12 1 3680 19460 90 355 360 76 246 252 62 71 48 0 1114 1017 345 197 200 40 100 100 0 0.119 0.139 0.142 0.160 0.092 0.133 0.413 52 412 1026 934 -3.073 109 917 114 820 0
13 -4.823879e-01 1 1 13 1 3860 19550 70 1031 1015 194 251 256 63 100 100 0 1350 1339 297 201 208 49 100 100 0 0.679 0.671 0.640 0.709 0.237 0.629 0.849 32 236 1929 1902 -0.559 780 1149 764 1138 0
14 5.464901e-01 1 1 14 1 4020 19450 90 4538 4449 758 262 269 63 100 100 0 2724 2642 707 195 197 40 100 100 0 1.691 1.711 1.670 1.889 0.758 1.559 0.894 52 411 6805 6634 0.758 4276 2529 4187 2447 0
15 -8.952657e-02 1 1 15 1 4180 19550 80 1191 1200 299 254 259 60 100 100 0 1273 1237 404 200 200 36 100 100 0 0.873 0.912 0.937 0.976 0.251 0.847 0.928 52 340 2010 1983 -0.196 937 1073 946 1037 0
16 -1.487193e-01 1 1 16 1 4350 19460 90 968 1010 405 256 266 61 100 98 0 1215 1079 431 193 196 41 100 100 0 0.697 0.851 0.780 0.923 0.481 0.787 0.846 52 403 1734 1640 -0.521 712 1022 754 886 0
17 0 1 17 1 4500 19550 100 258 263 64 251 259 60 22 3 0 220 231 52 187 188 38 46 23 0 0.212 0.273 1.456 2.449 3.266 0.176 0.015 80 490 40 56 -2.237 7 33 12 44 -50
18 3.009071e-01 1 1 18 1 4680 19450 90 452 438 108 259 262 62 86 76 0 413 421 143 177 182 37 94 90 0 0.818 0.734 0.851 1.171 1.111 0.602 0.494 52 412 429 423 -0.290 193 236 179 244 0
19 2.016523e+00 1 1 19 1 4810 19570 50 359 366 114 241 249 66 66 50 0 285 307 72 209 226 68 50 16 0 1.553 1.276 1.707 2.014 1.769 0.068 0.004 12 104 194 223 0.635 118 76 125 98 0
20 -1.659328e+00 1 1 20 1 5000 19460 80 1950 1709 788 245 252 58 100 100 0 5270 4934 2603 178 184 37 100 100 0 0.335 0.308 0.303 0.358 0.242 0.294 0.912 52 338 6797 6220 -1.578 1705 5092 1464 4756 0

Total number of rows: 9568

Table truncated, full table size 1764 Kbytes.




Supplementary data files not provided
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