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Sample GSM9147 Query DataSets for GSM9147
Status Public on Jan 20, 2004
Title db/db 11-1
Sample type RNA
 
Channel 1
Source name ID:11-1, 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 1850 18870 100 229 229 37 228 236 78 1 0 0 116 119 26 118 129 75 1 0 0 -0.500 1.000 1.302 2.909 5.162 0.069 0.001 80 524 -1 2 Error 1 -2 1 1 -50
2 -1.472831e-01 1 1 2 1 2030 18780 90 10325 10307 6453 225 233 58 100 100 0 8565 8104 4622 118 123 44 100 100 0 1.196 1.262 1.165 1.203 0.230 1.275 0.968 52 415 18547 18068 0.258 10100 8447 10082 7986 0
3 3.847337e-01 1 1 3 1 2180 18880 80 644 1011 828 224 229 45 100 100 0 393 730 699 112 116 27 100 100 0 1.495 1.273 1.331 1.619 1.009 1.198 0.907 52 338 701 1405 0.580 420 281 787 618 0
4 -5.554420e+00 1 1 4 1 2350 18780 80 242 230 61 218 224 45 34 11 0 1424 1218 735 118 121 31 98 98 0 0.018 0.011 0.098 1.115 5.173 -0.005 0.004 52 340 1330 1112 -5.766 24 1306 12 1100 0
5 8.450971e-02 1 1 5 1 2520 18870 90 1063 1453 1043 214 219 45 100 100 0 981 1257 1069 116 119 27 100 100 0 0.982 1.086 1.106 1.268 0.581 0.992 0.924 52 407 1714 2380 -0.027 849 865 1239 1141 0
6 -2.908172e-01 1 1 6 1 2670 18790 90 604 1044 739 215 222 46 98 98 0 594 1196 1027 117 120 29 100 100 0 0.816 0.768 0.809 0.846 0.253 0.751 0.951 52 407 866 1908 -0.294 389 477 829 1079 0
7 4.986965e-01 1 1 7 1 2840 18860 70 777 802 251 216 223 45 100 100 0 535 557 198 118 123 34 100 100 0 1.345 1.335 1.418 1.465 0.521 1.178 0.791 32 236 978 1025 0.428 561 417 586 439 0
8 -3.969632e-01 1 1 8 1 3010 18780 80 3293 3179 1345 213 215 43 100 100 0 4013 3818 1814 117 120 26 100 100 0 0.791 0.801 0.826 0.837 0.150 0.791 0.953 52 335 6976 6667 -0.339 3080 3896 2966 3701 0
9 0 1 9 1 3170 18860 100 204 203 60 210 213 42 18 7 0 136 140 32 116 120 31 33 10 0 -0.300 -0.292 1.934 2.910 3.868 -0.018 0.000 80 510 14 17 Error -6 20 -7 24 -50
10 -1.683962e-02 1 1 10 1 3330 18770 80 2845 2345 1150 202 205 44 100 100 0 2612 2178 1149 117 119 27 100 100 0 1.059 1.040 1.042 1.110 0.309 1.019 0.956 52 330 5138 4204 0.083 2643 2495 2143 2061 0
11 -2.144811e-01 1 1 11 1 3500 18870 80 645 607 197 206 209 45 98 94 0 645 661 302 114 121 32 100 100 0 0.827 0.733 0.693 0.823 0.365 0.686 0.845 52 338 970 948 -0.274 439 531 401 547 0
12 -2.951327e+00 1 1 12 1 3660 18760 70 318 326 66 203 207 44 90 59 0 1714 1629 308 114 121 43 100 100 0 0.072 0.081 0.076 0.083 0.054 0.087 0.579 32 230 1715 1638 -3.798 115 1600 123 1515 0
13 -2.742273e-01 1 1 13 1 3830 18870 80 1678 1431 591 199 205 46 100 100 0 1924 1598 796 110 122 94 100 100 0 0.815 0.828 0.826 0.922 0.317 0.780 0.922 52 340 3293 2720 -0.295 1479 1814 1232 1488 0
14 4.295775e-01 1 1 14 1 3990 18760 80 5827 6104 1597 192 197 42 100 100 0 3429 3607 923 109 114 26 100 100 0 1.697 1.690 1.692 1.700 0.230 1.698 0.972 52 332 8955 9410 0.763 5635 3320 5912 3498 0
15 1.535531e-02 1 1 15 1 4150 18850 70 2420 2253 751 200 224 127 100 100 0 2155 2039 611 110 130 87 100 100 0 1.086 1.064 1.064 1.061 0.224 1.068 0.923 32 236 4265 3982 0.118 2220 2045 2053 1929 0
16 -5.726894e-02 1 1 16 1 4320 18760 90 1919 1726 718 188 192 41 100 98 0 1941 1648 704 112 115 26 100 100 0 0.946 1.001 1.005 1.023 0.219 0.989 0.958 52 411 3560 3074 -0.079 1731 1829 1538 1536 0
17 0 1 17 1 4480 18850 100 216 222 49 185 189 41 41 21 0 129 140 42 111 114 26 43 25 0 1.722 1.276 1.500 3.933 13.306 0.454 0.096 80 497 49 66 0.784 31 18 37 29 -50
18 3.285429e-01 1 1 18 1 4660 18760 80 511 495 155 180 189 44 98 90 0 457 410 175 114 116 25 98 88 0 0.965 1.064 1.072 1.382 0.994 0.916 0.801 52 324 674 611 -0.051 331 343 315 296 0
19 0 1 19 1 4810 18850 100 156 156 62 175 181 43 16 7 0 180 176 46 111 115 27 78 63 0 -0.275 -0.292 0.962 1.968 2.724 -0.140 0.015 80 496 50 46 Error -19 69 -19 65 -50
20 -1.744355e+00 1 1 20 1 4970 18760 80 2102 2181 1318 176 179 36 100 100 0 7666 7343 4721 111 114 25 100 100 0 0.255 0.277 0.277 0.284 0.053 0.278 0.982 52 330 9481 9237 -1.972 1926 7555 2005 7232 0

Total number of rows: 9568

Table truncated, full table size 1789 Kbytes.




Supplementary data files not provided
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