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Sample GSM9170 Query DataSets for GSM9170
Status Public on Jan 20, 2004
Title db/db 12-3
Sample type RNA
 
Channel 1
Source name ID:12-3, 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 1890 18620 100 128 132 26 132 134 25 17 3 0 116 117 20 113 114 19 17 3 0 -1.333 0.000 1.301 2.741 3.517 0.017 0.000 80 491 -1 4 Error -4 3 0 4 -50
2 -3.368525e-02 1 1 2 1 2060 18540 90 39191 37496 6110 130 137 60 100 100 0 19463 19178 2732 115 118 24 100 100 0 2.019 1.960 1.961 1.967 0.237 1.894 0.928 52 414 58409 56429 1.014 39061 19348 37366 19063 0
3 5.783014e-01 1 1 3 1 2230 18620 60 483 581 317 134 133 25 100 93 0 342 443 242 116 118 19 96 93 0 1.544 1.367 1.307 2.289 3.541 1.248 0.847 32 176 575 774 0.627 349 226 447 327 0
4 -1.501295e+00 1 1 4 1 2380 18550 80 152 153 38 137 138 25 36 11 0 426 428 78 116 117 19 100 100 0 0.048 0.051 0.090 0.142 0.142 0.045 0.033 52 338 325 328 -4.369 15 310 16 312 0
5 7.537195e-02 1 1 5 1 2560 18620 70 860 830 295 148 151 32 100 100 0 790 740 289 125 127 22 100 100 0 1.071 1.109 1.082 1.255 0.597 0.583 0.617 32 236 1377 1297 0.099 712 665 682 615 0
6 -4.948571e-01 1 1 6 1 2710 18520 50 592 623 158 170 175 34 100 100 0 801 813 165 138 147 50 100 100 0 0.637 0.671 0.621 0.668 0.160 0.633 0.849 12 98 1085 1128 -0.652 422 663 453 675 0
7 4.346043e-01 1 1 7 1 2880 18630 50 357 363 57 174 181 38 100 100 0 356 351 87 143 142 26 100 100 0 0.859 0.909 0.908 1.065 0.538 0.787 0.598 12 104 396 397 -0.219 183 213 189 208 0
8 -4.166784e-03 1 1 8 1 3050 18530 80 1589 1470 538 193 197 37 100 100 0 1219 1168 382 138 144 42 100 100 0 1.291 1.240 1.255 1.261 0.508 1.210 0.905 52 328 2477 2307 0.369 1396 1081 1277 1030 0
9 0 1 9 1 3200 18610 100 220 230 90 205 207 37 31 13 0 195 211 69 141 144 27 71 50 0 0.278 0.357 0.910 1.473 1.348 0.229 0.042 80 505 69 95 -1.848 15 54 25 70 -50
10 -4.289823e-02 1 1 10 1 3380 18520 80 824 808 121 222 224 40 100 100 0 778 741 174 144 146 25 100 100 0 0.950 0.982 0.985 1.108 0.603 0.876 0.878 52 332 1236 1183 -0.075 602 634 586 597 0
11 0 1 11 1 3540 18610 60 242 250 55 251 251 42 21 9 0 345 335 73 155 160 28 93 90 0 -0.047 -0.006 0.318 0.763 1.474 -0.076 0.016 32 176 181 179 Error -9 190 -1 180 0
12 -1.428439e+00 1 1 12 1 3690 18520 70 330 337 83 256 261 46 65 40 0 597 574 84 155 160 37 100 100 0 0.167 0.193 0.209 0.260 0.190 0.146 0.152 32 236 516 500 -2.578 74 442 81 419 0
13 -1.125121e+00 1 1 13 1 3850 18610 70 383 386 60 272 280 50 87 65 0 568 575 116 167 172 37 100 100 0 0.277 0.279 0.271 0.307 0.184 0.187 0.326 32 236 512 522 -1.853 111 401 114 408 0
14 5.901097e-01 1 1 14 1 4020 18510 90 1621 1577 286 286 297 101 100 100 0 887 854 180 166 171 45 100 100 0 1.852 1.876 1.875 1.995 0.706 1.786 0.862 52 406 2056 1979 0.889 1335 721 1291 688 0
15 1.098409e-02 1 1 15 1 4190 18610 80 765 755 172 288 291 58 98 96 0 685 654 133 166 169 31 100 100 0 0.919 0.957 0.954 0.953 0.275 0.917 0.844 52 340 996 955 -0.122 477 519 467 488 0
16 -3.267603e-01 1 1 16 1 4360 18510 80 509 524 105 291 293 53 98 86 0 544 551 112 167 173 44 100 100 0 0.578 0.607 0.580 0.635 0.291 0.566 0.651 52 328 595 617 -0.790 218 377 233 384 0
17 0 1 17 1 4510 18610 100 322 315 55 287 302 94 12 0 0 191 195 46 164 177 61 18 3 0 1.296 0.903 1.498 2.552 2.950 0.195 0.019 80 478 62 59 0.374 35 27 28 31 -50
18 0 1 18 1 4730 18500 60 379 460 270 295 335 178 21 15 0 218 232 80 170 183 52 46 21 0 1.750 2.661 1.961 4.321 6.827 0.365 0.017 32 156 132 227 0.807 84 48 165 62 0
19 0 1 19 1 4840 18600 100 252 215 112 286 343 229 0 0 0 209 210 49 163 171 45 52 10 0 -0.739 -1.511 0.692 2.046 2.995 -0.509 0.081 80 478 12 -24 Error -34 46 -71 47 -50
20 -1.315669e+00 1 1 20 1 5000 18510 90 888 819 358 274 293 107 84 73 0 1417 1492 852 161 164 33 94 90 0 0.489 0.409 0.414 0.519 0.369 0.367 0.567 52 402 1870 1876 -1.033 614 1256 545 1331 0

Total number of rows: 9568

Table truncated, full table size 1774 Kbytes.




Supplementary data files not provided
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