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Sample GSM9086 Query DataSets for GSM9086
Status Public on Jan 20, 2004
Title c 1-1
Sample type RNA
 
Channel 1
Source name ID:c 1-1, Genotype=(C57BL/6J), 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 1460 18560 100 120 124 26 126 127 23 20 3 0 52 53 9 53 56 14 8 0 0 6.000 100000.000 3.500 6.873 7.945 0.220 0.011 80 476 -7 -2 2.585 -6 -1 -2 0 -50
2 1.399008e-01 1 1 2 1 1620 18480 100 19396 19534 2809 126 126 21 100 100 0 13468 13263 2476 54 56 11 100 100 0 1.437 1.469 1.472 1.492 0.192 1.435 0.970 80 490 32684 32617 0.523 19270 13414 19408 13209 0
3 9.025444e-01 1 1 3 1 1790 18570 70 526 522 136 128 129 21 100 100 0 218 221 72 54 57 17 100 100 0 2.427 2.359 2.479 2.514 0.652 2.111 0.849 32 236 562 561 1.279 398 164 394 167 0
4 -7.617446e-01 1 1 4 1 1950 18470 70 279 279 45 129 130 21 100 100 0 300 298 87 54 55 12 100 100 0 0.610 0.615 0.621 0.706 0.434 0.521 0.756 32 236 396 394 -0.714 150 246 150 244 0
5 1.731585e-02 1 1 5 1 2110 18550 80 578 581 240 128 129 21 100 98 0 486 467 251 51 53 12 96 96 0 1.034 1.089 1.112 1.620 1.782 0.997 0.897 52 340 885 869 0.049 450 435 453 416 0
6 1.818522e-01 1 1 6 1 2280 18460 70 344 367 101 125 125 21 100 100 0 221 237 75 52 53 11 100 100 0 1.296 1.308 1.365 1.385 0.483 1.228 0.845 32 230 388 427 0.374 219 169 242 185 0
7 6.373827e-01 1 1 7 1 2450 18560 80 285 298 98 127 129 19 94 92 0 139 141 47 53 54 11 98 94 0 1.837 1.943 1.776 2.300 1.836 1.712 0.741 52 340 244 259 0.878 158 86 171 88 0
8 2.960173e-02 1 1 8 1 2600 18460 90 1037 1027 179 126 127 19 100 100 0 899 882 207 52 53 11 100 100 0 1.076 1.086 1.104 1.122 0.216 1.055 0.956 52 407 1758 1731 0.105 911 847 901 830 0
9 1.250293e+00 1 1 9 1 2770 18550 70 196 194 24 126 128 21 96 81 0 67 68 14 53 55 15 50 12 0 5.000 4.533 4.909 12.354 17.600 0.597 0.111 32 236 84 83 2.322 70 14 68 15 0
10 -2.065176e-01 1 1 10 1 2940 18460 90 435 422 62 126 126 19 100 100 0 353 355 65 49 51 10 100 100 0 1.016 0.967 0.978 1.009 0.344 0.918 0.894 52 406 613 602 0.024 309 304 296 306 0
11 1.183147e-01 1 1 11 1 3100 18540 90 261 255 47 124 126 19 100 98 0 147 150 46 50 51 10 98 94 0 1.412 1.310 1.267 1.723 2.049 0.982 0.626 52 408 234 231 0.498 137 97 131 100 0
12 1.149871e-01 1 1 12 1 3260 18460 90 534 538 86 124 125 19 100 100 0 377 395 77 51 52 10 100 100 0 1.258 1.203 1.234 1.233 0.257 1.145 0.913 52 406 736 758 0.331 410 326 414 344 0
13 -1.676911e-02 1 1 13 1 3430 18550 60 413 399 71 122 124 21 96 96 0 302 293 63 52 53 11 100 100 0 1.164 1.149 1.130 1.165 0.370 1.021 0.817 32 176 541 518 0.219 291 250 277 241 0
14 3.997083e-01 1 1 14 1 3590 18460 80 1357 1310 162 125 127 22 100 100 0 861 852 113 50 51 13 100 100 0 1.519 1.478 1.478 1.500 0.262 1.431 0.944 52 338 2043 1987 0.603 1232 811 1185 802 0
15 0 1 15 1 3750 18550 100 119 119 26 122 123 20 15 6 0 50 55 24 49 51 12 15 7 0 -3.000 -0.500 4.000 7.200 10.949 0.047 0.001 80 451 -2 3 Error -3 1 -3 6 -50
16 0 1 16 1 3910 18450 100 119 120 22 118 119 18 23 2 0 50 49 8 50 51 11 6 1 0 100000.000 -2.000 2.250 4.867 7.364 0.010 0.000 80 491 1 1 16.610 1 0 2 -1 -50
17 0 1 17 1 4080 18550 100 116 115 28 120 120 19 20 6 0 48 50 10 50 52 11 16 2 0 2.000 100000.000 3.230 5.550 7.368 0.166 0.007 80 449 -6 -5 1.000 -4 -2 -5 0 -50
18 0 1 18 1 4240 18450 100 121 141 69 121 123 20 35 27 0 58 64 25 50 52 11 42 23 0 0.000 1.429 3.819 7.467 12.761 1.244 0.242 80 506 8 34 Error 0 8 20 14 -50
19 5.867004e-01 1 1 19 1 4420 18550 50 220 230 42 127 134 30 100 91 0 99 96 21 51 54 15 91 83 0 1.938 2.289 2.176 5.695 11.485 1.384 0.439 12 104 141 148 0.954 93 48 103 45 0
20 -1.246068e+00 1 1 20 1 4570 18460 80 578 540 176 121 124 19 100 100 0 1153 1147 447 49 51 10 100 100 0 0.414 0.382 0.375 0.393 0.121 0.372 0.933 52 340 1561 1517 -1.272 457 1104 419 1098 0

Total number of rows: 9568

Table truncated, full table size 1705 Kbytes.




Supplementary data files not provided
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