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Sample GSM9171 Query DataSets for GSM9171
Status Public on Jan 20, 2004
Title db/db 10-4
Sample type RNA
 
Channel 1
Source name ID:10-4, 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 18, 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 1920 18670 100 214 217 31 216 218 34 12 1 0 141 142 24 143 145 24 13 1 0 1.000 -1.000 1.889 3.131 4.574 0.186 0.019 80 502 -4 0 0.000 -2 -2 1 -1 -50
2 -1.377587e-01 1 1 2 1 2090 18580 90 34035 31346 7082 205 210 41 100 100 0 18808 17527 3365 146 150 28 100 100 0 1.813 1.792 1.835 1.838 0.592 1.760 0.917 52 415 52492 48522 0.858 33830 18662 31141 17381 0
3 6.792686e-01 1 1 3 1 2240 18670 60 460 664 369 198 201 28 96 96 0 379 472 254 153 156 26 96 90 0 1.159 1.461 1.337 1.657 1.008 1.377 0.861 32 176 488 785 0.213 262 226 466 319 0
4 0 1 4 1 2420 18590 80 170 183 75 200 200 28 25 17 0 576 583 94 145 148 24 100 100 0 -0.070 -0.039 0.190 0.212 0.132 -0.035 0.019 52 340 401 421 Error -30 431 -17 438 0
5 8.257963e-02 1 1 5 1 2580 18660 60 722 802 348 195 196 30 100 100 0 691 735 373 144 147 21 100 100 0 0.963 1.027 1.029 1.143 0.362 0.964 0.922 32 176 1074 1198 -0.054 527 547 607 591 0
6 5.951869e-03 1 1 6 1 2720 18580 60 606 598 232 194 195 28 96 93 0 649 599 238 146 145 24 100 100 0 0.819 0.892 0.945 0.976 0.537 0.836 0.832 32 176 915 857 -0.288 412 503 404 453 0
7 4.783123e-01 1 1 7 1 2900 18680 70 336 335 85 193 192 28 90 81 0 344 335 118 136 137 22 96 84 0 0.688 0.714 0.727 0.852 0.567 0.653 0.697 32 236 351 341 -0.541 143 208 142 199 0
8 -4.660423e-01 1 1 8 1 3070 18570 70 1045 1013 211 184 188 28 100 100 0 1220 1219 177 136 137 21 100 100 0 0.794 0.765 0.752 0.763 0.146 0.754 0.884 32 236 1945 1912 -0.332 861 1084 829 1083 0
9 9.911130e-01 1 1 9 1 3240 18670 80 230 229 53 190 192 32 53 28 0 249 253 71 131 134 23 90 82 0 0.339 0.320 0.676 2.175 6.964 0.073 0.014 52 340 158 161 -1.561 40 118 39 122 0
10 -2.090842e-01 1 1 10 1 3410 18560 80 724 719 216 192 195 32 100 100 0 775 780 336 130 132 21 100 100 0 0.825 0.811 0.794 0.987 0.721 0.687 0.792 52 332 1177 1177 -0.278 532 645 527 650 0
11 -3.877942e-01 1 1 11 1 3570 18660 60 260 272 46 182 187 33 93 62 0 386 400 93 135 135 23 100 100 0 0.311 0.340 0.353 0.383 0.199 0.273 0.383 32 176 329 355 -1.686 78 251 90 265 0
12 -1.832797e+00 1 1 12 1 3730 18570 70 224 220 62 185 188 32 62 28 0 573 568 93 132 135 22 100 100 0 0.088 0.080 0.109 0.160 0.128 0.116 0.174 32 236 480 471 -3.499 39 441 35 436 0
13 -7.398189e-01 1 1 13 1 3900 18650 70 378 362 74 178 181 29 96 93 0 576 582 112 130 130 20 100 100 0 0.448 0.407 0.395 0.438 0.189 0.391 0.717 32 236 646 636 -1.157 200 446 184 452 0
14 3.224539e-01 1 1 14 1 4060 18560 80 1450 1414 249 177 177 28 100 100 0 939 953 125 125 126 20 100 100 0 1.564 1.494 1.472 1.502 0.266 1.488 0.919 52 332 2087 2065 0.645 1273 814 1237 828 0
15 1.878442e-01 1 1 15 1 4220 18650 80 724 722 172 176 178 37 100 100 0 657 625 150 125 125 21 100 100 0 1.030 1.092 1.032 1.203 0.691 1.025 0.862 52 340 1080 1046 0.043 548 532 546 500 0
16 -1.505919e-01 1 1 16 1 4380 18550 70 516 521 135 175 178 31 100 100 0 572 582 96 126 129 24 100 100 0 0.765 0.759 0.790 0.786 0.320 0.739 0.747 32 230 787 802 -0.387 341 446 346 456 0
17 0 1 17 1 4540 18650 100 187 188 35 178 181 29 17 10 0 143 151 41 126 127 21 42 17 0 0.529 0.400 0.765 2.213 3.289 0.114 0.013 80 492 26 35 -0.918 9 17 10 25 -50
18 4.854205e-02 1 1 18 1 4690 18550 60 202 195 44 175 177 30 43 18 0 287 295 98 127 128 20 90 87 0 0.169 0.119 0.282 0.478 0.538 0.026 0.004 32 165 187 188 -2.567 27 160 20 168 0
19 0 1 19 1 4870 18650 100 145 135 52 178 179 27 6 1 0 167 180 57 125 127 32 53 41 0 -0.786 -0.782 0.690 2.027 2.489 -0.636 0.397 80 496 9 12 Error -33 42 -43 55 -50
20 -1.484232e+00 1 1 20 1 5040 18550 70 853 805 250 172 177 30 100 100 0 2037 1910 832 124 130 45 100 100 0 0.356 0.354 0.351 0.402 0.199 0.331 0.931 32 236 2594 2419 -1.490 681 1913 633 1786 0

Total number of rows: 9568

Table truncated, full table size 1747 Kbytes.




Supplementary data files not provided
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