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Sample GSM9071 Query DataSets for GSM9071
Status Public on Jan 20, 2004
Title db/db 14-5
Sample type RNA
 
Channel 1
Source name ID:14-5, 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 2210 16860 100 65 67 18 72 81 107 0 0 0 139 140 20 149 158 92 0 0 0 0.700 0.556 0.685 1.520 2.553 0.024 0.001 80 501 -17 -14 -0.515 -7 -10 -5 -9 -50
2 1.900124e-01 1 1 2 1 2390 16760 120 10787 11697 5609 73 81 95 100 100 0 7914 8412 3822 155 163 83 100 100 0 1.381 1.408 1.415 1.443 0.383 1.392 0.958 120 638 18473 19881 0.466 10714 7759 11624 8257 0
3 8.697673e-02 1 1 3 1 2540 16860 110 2271 2246 803 75 78 21 100 100 0 1724 1920 791 147 154 31 100 100 0 1.393 1.224 1.303 1.299 0.355 1.163 0.899 80 440 3773 3944 0.478 2196 1577 2171 1773 0
4 -3.497995e+00 1 1 4 1 2720 16760 110 152 146 31 67 69 17 95 92 0 1005 987 195 115 118 27 100 100 0 0.096 0.091 0.092 0.092 0.031 0.085 0.763 80 545 975 951 -3.388 85 890 79 872 0
5 -3.266225e-01 1 1 5 1 2860 16850 100 1896 1782 486 71 76 29 100 100 0 2078 1952 505 112 115 21 100 100 0 0.928 0.930 0.929 0.986 0.396 0.915 0.901 80 451 3791 3551 -0.107 1825 1966 1711 1840 0
6 -6.355291e-01 1 1 6 1 3050 16770 100 478 489 207 69 73 21 100 98 0 786 787 315 106 108 21 100 100 0 0.601 0.617 0.604 0.636 0.212 0.593 0.871 80 497 1089 1101 -0.733 409 680 420 681 0
7 3.172389e-01 1 1 7 1 3210 16870 110 212 228 109 70 72 16 91 86 0 252 266 107 109 110 16 92 91 0 0.993 1.006 1.035 1.093 1.029 0.891 0.746 80 452 285 315 -0.010 142 143 158 157 0
8 -1.326761e-01 1 1 8 1 3360 16770 110 3563 3336 757 69 72 17 100 100 0 3227 3067 620 106 107 16 100 100 0 1.120 1.103 1.120 1.107 0.159 1.104 0.959 80 563 6615 6228 0.163 3494 3121 3267 2961 0
9 6.216396e-01 1 1 9 1 3540 16870 110 450 429 143 70 74 18 100 100 0 399 387 100 112 113 16 100 98 0 1.324 1.305 1.293 1.350 0.415 1.228 0.881 80 479 667 634 0.405 380 287 359 275 0
10 -1.593352e-01 1 1 10 1 3700 16760 110 1827 1741 380 68 71 16 100 100 0 1799 1737 391 106 108 17 100 100 0 1.039 1.026 1.052 1.043 0.160 1.007 0.955 80 555 3452 3304 0.055 1759 1693 1673 1631 0
11 -5.712598e-01 1 1 11 1 3860 16850 110 390 393 120 69 72 17 100 100 0 652 637 142 112 114 19 100 100 0 0.594 0.617 0.614 0.637 0.244 0.588 0.824 80 459 861 849 -0.750 321 540 324 525 0
12 -1.971241e+00 1 1 12 1 4020 16750 110 226 224 48 66 68 16 100 98 0 753 752 140 109 111 19 100 100 0 0.248 0.246 0.241 0.251 0.084 0.234 0.849 80 528 804 801 -2.009 160 644 158 643 0
13 -2.990097e-01 1 1 13 1 4180 16840 110 742 710 190 68 71 19 100 100 0 951 889 225 111 113 28 100 100 0 0.802 0.825 0.812 0.859 0.287 0.780 0.885 80 483 1514 1420 -0.318 674 840 642 778 0
14 4.805215e-01 1 1 14 1 4350 16750 110 3624 3456 938 67 70 19 100 100 0 2316 2183 618 105 109 32 100 100 0 1.609 1.631 1.669 1.699 0.511 1.554 0.935 80 532 5768 5467 0.686 3557 2211 3389 2078 0
15 -2.879513e-01 1 1 15 1 4490 16840 110 1039 964 237 69 72 24 100 100 0 1185 1120 239 107 109 16 100 100 0 0.900 0.884 0.891 0.905 0.216 0.875 0.925 80 477 2048 1908 -0.152 970 1078 895 1013 0
16 4.353098e-02 1 1 16 1 4660 16750 100 982 924 207 67 73 31 100 100 0 951 909 190 107 109 17 100 100 0 1.084 1.069 1.085 1.113 0.333 1.050 0.909 80 490 1759 1659 0.117 915 844 857 802 0
17 8.952935e-01 1 1 17 1 4830 16840 100 555 524 139 68 72 27 100 98 0 426 400 106 111 112 15 96 95 0 1.546 1.578 1.568 1.761 1.025 1.458 0.884 80 489 802 745 0.629 487 315 456 289 0
18 4.029105e-01 1 1 18 1 5000 16750 110 339 330 72 66 68 17 100 100 0 358 348 69 109 109 16 100 100 0 1.096 1.105 1.102 1.179 0.457 1.018 0.841 80 554 522 503 0.133 273 249 264 239 0
19 -1.394707e-01 1 1 19 1 5160 16840 110 127 125 30 67 68 15 92 83 0 196 192 38 109 111 15 93 92 0 0.690 0.699 0.713 0.795 0.614 0.528 0.467 80 492 147 141 -0.536 60 87 58 83 0
20 -1.738007e+00 1 1 20 1 5320 16760 110 1522 1340 425 64 74 70 98 98 0 3816 3448 864 110 116 51 100 100 0 0.393 0.382 0.386 0.397 0.175 0.383 0.909 80 535 5164 4614 -1.346 1458 3706 1276 3338 0

Total number of rows: 9568

Table truncated, full table size 1772 Kbytes.




Supplementary data files not provided
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