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Sample GSM9143 Query DataSets for GSM9143
Status Public on Jan 20, 2004
Title db/db 7-3
Sample type RNA
 
Channel 1
Source name ID:7-3, 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 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 1990 19580 100 151 162 49 155 161 43 18 7 0 105 109 39 92 98 29 26 11 0 -0.308 0.412 1.255 3.736 7.650 0.334 0.061 80 501 9 24 Error -4 13 7 17 -50
2 1.373394e-01 1 1 2 1 2160 19510 100 17703 14699 6467 152 159 42 100 100 0 11044 9694 3868 96 107 62 100 100 0 1.603 1.516 1.540 1.489 0.414 1.521 0.964 80 513 28499 24145 0.681 17551 10948 14547 9598 0
3 3.853770e-01 1 1 3 1 2330 19590 60 1166 1218 487 156 165 47 100 100 0 948 942 409 91 99 34 100 100 0 1.179 1.248 1.158 1.421 0.701 1.179 0.893 32 176 1867 1913 0.237 1010 857 1062 851 0
4 -4.881760e+00 1 1 4 1 2490 19510 80 169 180 60 149 155 44 38 19 0 857 892 180 91 98 37 100 100 0 0.026 0.039 0.077 0.097 0.070 0.036 0.076 52 340 786 832 -5.259 20 766 31 801 0
5 1.030270e-01 1 1 5 1 2650 19600 60 1293 1271 495 146 156 44 100 100 0 1243 1155 491 89 95 29 100 100 0 0.994 1.055 1.065 1.098 0.320 0.989 0.899 32 176 2301 2191 -0.009 1147 1154 1125 1066 0
6 -6.971802e-01 1 1 6 1 2810 19510 70 576 604 259 141 147 53 100 93 0 758 792 312 83 91 40 100 96 0 0.644 0.653 0.643 0.651 0.206 0.685 0.867 32 236 1110 1172 -0.634 435 675 463 709 0
7 6.998324e-01 1 1 7 1 2990 19570 60 385 391 146 139 143 42 100 93 0 264 285 120 83 94 48 96 90 0 1.359 1.248 1.162 1.533 1.082 1.067 0.714 32 176 427 454 0.443 246 181 252 202 0
8 -1.780795e-01 1 1 8 1 3150 19480 80 2287 2132 646 132 137 37 100 100 0 2357 2223 589 76 83 31 100 100 0 0.945 0.932 0.936 0.924 0.194 0.938 0.962 52 328 4436 4147 -0.082 2155 2281 2000 2147 0
9 0 1 9 1 3300 19580 100 115 130 61 129 134 39 16 7 0 86 94 39 81 87 35 15 6 0 -2.800 0.077 1.607 4.665 12.136 0.693 0.262 80 483 -9 14 Error -14 5 1 13 -50
10 -3.565314e-01 1 1 10 1 3470 19480 90 1080 1008 271 130 136 45 100 98 0 1261 1210 266 80 90 43 100 100 0 0.804 0.777 0.789 0.769 0.183 0.786 0.948 52 411 2131 2008 -0.314 950 1181 878 1130 0
11 4.392062e-02 1 1 11 1 3640 19580 70 354 349 82 126 136 57 96 90 0 327 338 90 83 92 50 100 100 0 0.934 0.875 0.854 0.944 0.435 0.771 0.711 32 236 472 478 -0.098 228 244 223 255 0
12 -2.020828e+00 1 1 12 1 3810 19480 80 283 313 135 125 133 45 98 86 0 787 781 270 83 89 33 100 100 0 0.224 0.269 0.246 0.279 0.154 0.282 0.713 52 332 862 886 -2.156 158 704 188 698 0
13 -5.592916e-02 1 1 13 1 3970 19570 70 739 761 121 122 132 48 100 100 0 724 737 114 84 93 42 100 100 0 0.964 0.979 1.003 1.000 0.219 0.930 0.886 32 236 1257 1292 -0.053 617 640 639 653 0
14 7.342561e-01 1 1 14 1 4140 19470 100 3077 2810 900 122 130 44 100 100 0 1807 1694 541 83 92 36 100 100 0 1.714 1.669 1.686 1.794 0.775 1.629 0.959 80 516 4679 4299 0.777 2955 1724 2688 1611 0
15 -5.934765e-02 1 1 15 1 4290 19560 70 1125 1040 282 123 131 43 100 100 0 1089 1068 182 90 100 40 100 100 0 1.003 0.938 0.980 0.929 0.205 0.966 0.920 32 236 2001 1895 0.004 1002 999 917 978 0
16 -5.243573e-02 1 1 16 1 4460 19470 80 879 824 237 130 135 42 100 98 0 845 809 217 91 97 37 100 100 0 0.993 0.967 0.994 0.988 0.271 0.948 0.896 52 320 1503 1412 -0.010 749 754 694 718 0
17 0 1 17 1 4620 19570 100 147 168 68 133 142 51 32 15 0 125 136 64 100 107 40 37 11 0 0.560 0.972 1.140 2.661 5.346 0.561 0.220 80 480 39 71 -0.837 14 25 35 36 -50
18 0 1 18 1 4780 19480 100 171 173 79 134 141 49 38 15 0 138 151 81 97 106 41 50 25 0 0.902 0.722 1.036 2.783 5.240 0.611 0.321 80 502 78 93 -0.148 37 41 39 54 -50
19 0 1 19 1 4950 19570 100 125 131 42 140 150 50 8 2 0 101 112 33 109 116 44 11 1 0 1.875 -3.000 1.456 1.936 2.115 0.584 0.264 80 501 -23 -6 0.907 -15 -8 -9 3 -50
20 -2.221388e+00 1 1 20 1 5120 19490 80 907 959 462 151 161 73 100 98 0 3348 3364 1621 108 122 103 100 100 0 0.233 0.248 0.239 0.250 0.072 0.253 0.942 52 321 3996 4064 -2.100 756 3240 808 3256 0

Total number of rows: 9568

Table truncated, full table size 1747 Kbytes.




Supplementary data files not provided
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