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Sample GSM9073 Query DataSets for GSM9073
Status Public on Jan 20, 2004
Title db/db 13-2
Sample type RNA
 
Channel 1
Source name ID:13-2, 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 13, 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 2430 16590 100 80 83 21 77 81 18 20 8 0 97 97 16 91 93 13 22 7 0 0.500 1.000 1.143 2.498 4.173 0.230 0.033 80 448 9 12 -1.000 3 6 6 6 -50
2 0.5993573650 1 1 2 1 2590 16500 130 24548 25428 8516 78 82 23 100 100 0 8123 8619 2743 95 97 15 100 100 0 3.048 2.974 2.974 2.975 0.305 2.972 0.981 120 673 32498 33874 1.608 24470 8028 25350 8524 0
3 0.4760332414 1 1 3 1 2770 16600 120 2264 2634 1224 80 84 24 100 100 0 1282 1457 742 109 110 15 100 100 0 1.862 1.895 1.889 2.117 0.891 1.791 0.962 120 422 3357 3902 0.897 2184 1173 2554 1348 0
4 -3.5385847729 1 1 4 1 2920 16500 110 125 129 29 74 77 19 90 70 0 878 867 156 110 111 15 100 100 0 0.066 0.073 0.069 0.075 0.039 0.064 0.496 80 478 819 812 -3.913 51 768 55 757 0
5 -0.1863960292 1 1 5 1 3080 16580 120 2550 2270 738 86 106 65 99 99 0 2214 1963 624 117 130 43 100 99 0 1.175 1.183 1.201 1.223 0.291 1.163 0.965 120 526 4561 4030 0.233 2464 2097 2184 1846 0
6 -0.4875791551 1 1 6 1 3250 16500 110 1007 1018 444 78 98 68 100 97 0 1130 1193 475 112 125 46 98 98 0 0.913 0.870 0.848 0.932 0.469 0.866 0.934 80 535 1947 2021 -0.132 929 1018 940 1081 0
7 0.6694083351 1 1 7 1 3420 16600 110 376 353 130 74 75 16 100 100 0 315 302 91 116 117 14 96 92 0 1.518 1.500 1.475 2.080 3.296 1.363 0.850 80 424 501 465 0.602 302 199 279 186 0
8 0.2291136310 1 1 8 1 3590 16510 120 3875 3637 1012 71 73 17 100 100 0 2407 2240 668 114 116 15 100 100 0 1.659 1.677 1.643 1.785 0.544 1.630 0.968 120 604 6097 5692 0.730 3804 2293 3566 2126 0
9 0.7341315057 1 1 9 1 3740 16600 110 451 442 128 76 78 19 100 100 0 347 344 92 122 123 15 97 96 0 1.667 1.649 1.677 2.041 1.710 1.516 0.908 80 372 600 588 0.737 375 225 366 222 0
10 -0.0451883808 1 1 10 1 3910 16500 120 1740 1665 435 72 73 17 100 100 0 1492 1392 364 118 120 15 100 100 0 1.214 1.250 1.248 1.304 0.402 1.217 0.955 120 600 3042 2867 0.280 1668 1374 1593 1274 0
11 -1.0047867135 1 1 11 1 4070 16590 120 197 190 49 78 81 22 92 89 0 409 383 99 123 125 16 98 98 0 0.416 0.431 0.433 0.452 0.171 0.409 0.811 120 412 405 372 -1.265 119 286 112 260 0
12 -1.8741437173 1 1 12 1 4220 16490 120 165 165 40 73 75 18 95 90 0 564 516 139 120 122 15 97 97 0 0.207 0.232 0.227 0.262 0.200 0.213 0.749 120 579 536 488 -2.271 92 444 92 396 0
13 -0.6028931206 1 1 13 1 4400 16580 120 454 427 150 74 79 30 95 94 0 725 649 241 123 126 30 95 93 0 0.631 0.671 0.656 0.874 0.951 0.629 0.919 120 522 982 879 -0.664 380 602 353 526 0
14 0.7445223780 1 1 14 1 4560 16490 120 4579 4246 1369 72 75 17 100 100 0 2001 1838 619 119 121 15 100 100 0 2.395 2.428 2.421 2.634 0.982 2.334 0.950 120 598 6389 5893 1.260 4507 1882 4174 1719 0
15 -0.1788921363 1 1 15 1 4730 16580 120 688 627 183 74 76 17 99 99 0 777 703 222 121 123 14 98 98 0 0.936 0.950 0.924 1.244 1.725 0.903 0.951 120 472 1270 1135 -0.095 614 656 553 582 0
16 -0.4169574816 1 1 16 1 4890 16490 120 444 419 115 71 72 15 100 99 0 622 581 142 120 121 14 98 98 0 0.743 0.755 0.757 0.833 0.569 0.725 0.913 120 590 875 809 -0.429 373 502 348 461 0
17 0.9372575538 1 1 17 1 5060 16590 110 382 349 110 73 75 16 96 93 0 302 279 81 124 126 15 88 88 0 1.736 1.781 1.668 1.734 0.534 1.555 0.856 80 425 487 431 0.796 309 178 276 155 0
18 0.5745679490 1 1 18 1 5210 16490 120 252 242 56 66 68 14 99 98 0 262 255 43 122 123 14 100 98 0 1.329 1.323 1.333 1.436 0.690 1.193 0.835 120 618 326 309 0.410 186 140 176 133 0
19 0.1199000335 1 1 19 1 5390 16590 110 119 117 34 68 71 14 81 72 0 182 177 38 124 125 14 87 82 0 0.879 0.925 0.895 1.056 0.767 0.609 0.458 80 451 109 102 -0.186 51 58 49 53 0
20 -1.1755238469 1 1 20 1 5550 16500 130 1803 1671 377 69 71 16 100 100 0 3118 2885 675 122 123 17 100 100 0 0.579 0.580 0.581 0.591 0.093 0.564 0.962 120 690 4730 4365 -0.789 1734 2996 1602 2763 0

Total number of rows: 9568

Table truncated, full table size 1757 Kbytes.




Supplementary data files not provided
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