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Sample GSM9144 Query DataSets for GSM9144
Status Public on Jan 20, 2004
Title db/db 7-4
Sample type RNA
 
Channel 1
Source name ID:7-4, 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 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 1960 18920 100 112 116 32 106 113 51 13 2 0 96 100 30 95 117 268 0 0 0 6.000 2.000 1.141 2.063 3.124 0.447 0.165 80 501 7 15 2.585 6 1 10 5 -50
2 1.366237e-01 1 1 2 1 2130 18850 100 13907 11518 5408 102 105 26 100 100 0 9497 8037 3452 90 93 23 100 100 0 1.468 1.437 1.411 1.410 0.370 1.440 0.967 80 506 23212 19363 0.553 13805 9407 11416 7947 0
3 6.548411e-02 1 1 3 1 2290 18930 60 760 751 336 106 110 27 100 100 0 712 745 332 92 96 26 100 100 0 1.055 0.988 1.006 1.064 0.491 0.360 0.428 32 176 1274 1298 0.077 654 620 645 653 0
4 -4.744037e+00 1 1 4 1 2470 18850 80 125 131 53 105 111 33 38 15 0 670 647 190 92 98 30 100 100 0 0.035 0.047 0.069 0.101 0.090 0.041 0.088 52 340 598 581 -4.853 20 578 26 555 0
5 -2.460764e-01 1 1 5 1 2620 18930 60 668 783 442 105 109 29 100 100 0 841 929 452 92 96 28 100 100 0 0.752 0.810 0.792 0.835 0.418 0.828 0.897 32 176 1312 1515 -0.412 563 749 678 837 0
6 -9.070288e-01 1 1 6 1 2780 18840 60 492 499 236 103 108 31 100 96 0 781 843 393 91 94 22 100 100 0 0.564 0.527 0.539 0.513 0.146 0.645 0.784 32 176 1079 1148 -0.827 389 690 396 752 0
7 5.480947e-02 1 1 7 1 2940 18920 60 214 208 67 100 102 24 90 81 0 201 215 71 87 92 25 100 87 0 1.000 0.844 0.894 1.006 0.510 0.714 0.604 32 176 228 236 0.000 114 114 108 128 0
8 -9.045011e-02 1 1 8 1 3120 18830 80 1382 1351 594 98 117 153 100 96 0 1493 1466 628 82 104 202 100 96 0 0.910 0.905 0.879 0.937 0.295 0.885 0.928 52 324 2695 2637 -0.136 1284 1411 1253 1384 0
9 0 1 9 1 3270 18920 100 235 353 442 233 332 299 15 5 0 271 415 720 209 335 329 13 6 0 0.032 0.583 1.308 1.551 1.531 0.484 0.479 80 453 64 326 -4.954 2 62 120 206 -50
10 0 1 10 1 3440 18830 100 948 952 211 697 733 504 11 0 0 1006 993 235 733 768 504 11 0 0 0.919 0.981 1.038 1.661 2.825 0.742 0.616 80 480 524 515 -0.121 251 273 255 260 -50
11 0 1 11 1 3600 18920 100 453 532 295 127 389 430 43 7 0 492 532 341 104 388 456 42 11 0 0.840 0.946 1.047 1.418 1.465 0.847 0.843 80 478 714 833 -0.251 326 388 405 428 -50
12 -1.827348e+00 1 1 12 1 3780 18830 80 214 221 66 91 95 25 98 92 0 532 555 151 73 77 20 100 100 0 0.268 0.270 0.255 0.268 0.105 0.285 0.825 52 326 582 612 -1.900 123 459 130 482 0
13 -2.274291e-01 1 1 13 1 3950 18920 80 397 387 169 91 96 27 98 94 0 438 457 220 74 78 22 100 98 0 0.841 0.773 0.802 0.845 0.396 0.727 0.851 52 338 670 679 -0.250 306 364 296 383 0
14 6.900867e-01 1 1 14 1 4110 18820 100 1663 1529 830 89 93 27 100 100 0 1139 1029 507 71 75 22 100 98 0 1.474 1.503 1.502 1.533 0.550 1.465 0.914 80 492 2642 2398 0.560 1574 1068 1440 958 0
15 -1.657317e-02 1 1 15 1 4260 18900 70 890 826 229 93 96 28 100 100 0 881 856 199 75 80 25 100 100 0 0.989 0.939 0.952 0.934 0.213 0.931 0.926 32 236 1603 1514 -0.016 797 806 733 781 0
16 7.333072e-02 1 1 16 1 4430 18820 80 523 509 170 86 91 31 100 100 0 508 503 154 69 72 24 100 100 0 0.995 0.975 0.960 1.009 0.367 0.941 0.852 52 316 876 857 -0.007 437 439 423 434 0
17 0 1 17 1 4580 18920 100 90 102 37 89 96 38 20 7 0 72 76 23 69 73 22 18 6 0 0.333 1.857 1.800 4.391 7.812 0.706 0.107 80 484 4 20 -1.585 1 3 13 7 -50
18 3.616815e-01 1 1 18 1 4760 18830 80 162 166 39 89 95 30 86 63 0 142 148 48 71 76 23 88 71 0 1.028 1.000 1.000 1.302 1.056 0.627 0.428 52 324 144 154 0.040 73 71 77 77 0
19 0 1 19 1 4910 18920 100 88 93 53 85 91 27 7 3 0 87 101 58 71 77 29 30 12 0 0.188 0.267 0.711 1.332 1.625 0.613 0.423 80 500 19 38 -2.415 3 16 8 30 -50
20 0 1 20 1 5080 18830 100 397 434 282 109 178 143 63 51 0 1249 1483 1149 91 165 149 90 81 0 0.249 0.233 0.206 1.008 5.362 0.204 0.567 80 498 1446 1717 -2.007 288 1158 325 1392 -50

Total number of rows: 9568

Table truncated, full table size 1757 Kbytes.




Supplementary data files not provided
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