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Sample GSM9070 Query DataSets for GSM9070
Status Public on Jan 20, 2004
Title db/db 14-4
Sample type RNA
 
Channel 1
Source name ID:14-4, 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 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 1980 16470 100 187 190 41 192 206 69 6 0 0 186 190 40 198 213 68 2 0 0 0.417 0.250 0.982 3.873 13.490 0.747 0.465 80 480 -17 -10 -1.263 -5 -12 -2 -8 -50
2 4.840685e-01 1 1 2 1 2140 16380 110 21868 20570 6313 217 358 1031 100 100 0 10518 10044 2802 222 270 345 100 100 0 2.103 2.072 2.090 2.057 0.235 2.098 0.985 80 537 31947 30175 1.072 21651 10296 20353 9822 0
3 4.464222e-01 1 1 3 1 2320 16480 120 2438 2430 833 250 382 1042 87 60 0 1422 1438 638 265 311 355 86 82 0 1.891 1.858 1.926 2.876 4.304 1.640 0.923 120 491 3345 3353 0.919 2188 1157 2180 1173 0
4 0 1 4 1 2480 16380 110 185 190 37 235 246 68 1 0 0 1029 1043 132 240 252 65 100 100 0 -0.063 -0.056 0.026 0.033 0.023 -0.057 0.080 80 521 739 758 Error -50 789 -45 803 0
5 -8.574613e-02 1 1 5 1 2630 16470 100 2554 2468 472 256 271 80 100 100 0 1982 1990 418 261 275 75 100 100 0 1.335 1.279 1.275 1.301 0.212 1.246 0.954 80 440 4019 3941 0.417 2298 1721 2212 1729 0
6 -4.488319e-01 1 1 6 1 2790 16400 80 920 902 175 305 316 67 100 100 0 1043 1023 161 325 335 77 100 100 0 0.857 0.855 0.855 0.862 0.219 0.807 0.854 52 316 1333 1295 -0.223 615 718 597 698 0
7 0 1 7 1 2960 16470 100 535 522 116 416 435 123 46 11 0 493 487 95 417 433 107 38 2 0 1.566 1.514 1.504 1.961 1.855 0.775 0.389 80 456 195 176 0.647 119 76 106 70 -50
8 -1.145086e-01 1 1 8 1 3120 16390 100 3553 3653 487 511 527 134 100 100 0 2768 2840 411 491 507 111 100 100 0 1.336 1.338 1.349 1.349 0.135 1.313 0.967 80 479 5319 5491 0.418 3042 2277 3142 2349 0
9 0 1 9 1 3290 16470 100 489 498 120 569 574 123 2 2 0 473 475 88 530 536 109 3 0 0 1.404 1.291 1.266 2.574 3.903 0.788 0.484 80 446 -137 -126 0.489 -80 -57 -71 -55 -50
10 -1.052769e-01 1 1 10 1 3460 16380 110 2134 2070 250 536 554 110 100 100 0 1836 1805 238 485 501 103 100 100 0 1.183 1.162 1.156 1.174 0.147 1.110 0.935 80 540 2949 2854 0.242 1598 1351 1534 1320 0
11 0 1 11 1 3620 16470 100 703 686 112 613 617 115 41 6 0 707 691 103 533 544 102 73 35 0 0.517 0.462 0.629 1.450 3.983 0.595 0.375 80 436 264 231 -0.951 90 174 73 158 -50
12 0 1 12 1 3770 16370 80 508 509 77 599 604 119 0 0 0 1042 1033 146 533 540 109 96 94 0 -0.179 -0.180 0.072 0.106 0.085 -0.014 0.001 52 314 418 410 Error -91 509 -90 500 0
13 -2.181663e-01 1 1 13 1 3930 16460 100 1164 1161 159 545 556 110 100 98 0 1122 1098 144 484 504 121 100 100 0 0.970 1.003 1.015 1.029 0.263 0.935 0.844 80 449 1257 1230 -0.044 619 638 616 614 0
14 4.928297e-01 1 1 14 1 4090 16370 100 5453 5462 961 502 519 109 100 100 0 2638 2683 477 438 458 112 100 100 0 2.250 2.209 2.210 2.240 0.324 2.155 0.953 80 476 7151 7205 1.170 4951 2200 4960 2245 0
15 -2.469693e-01 1 1 15 1 4270 16460 100 1312 1301 176 444 463 148 100 97 0 1241 1226 157 399 418 122 100 100 0 1.031 1.036 1.026 1.047 0.199 1.006 0.908 80 461 1710 1684 0.044 868 842 857 827 0
16 -5.765080e-02 1 1 16 1 4440 16370 100 865 838 225 276 301 123 98 90 0 755 770 159 291 311 92 100 96 0 1.269 1.173 1.152 1.171 0.328 1.159 0.894 80 489 1053 1041 0.344 589 464 562 479 0
17 5.307010e-01 1 1 17 1 4600 16480 110 501 493 126 220 251 118 88 66 0 428 437 93 267 293 102 75 32 0 1.745 1.606 1.694 2.191 2.614 0.823 0.509 80 576 442 443 0.804 281 161 273 170 0
18 -1.350576e-01 1 1 18 1 4790 16370 70 379 386 60 240 257 83 87 37 0 423 423 64 265 285 79 90 50 0 0.880 0.924 0.918 1.065 0.614 0.660 0.512 32 228 297 304 -0.185 139 158 146 158 0
19 0 1 19 1 4920 16470 100 234 236 53 267 315 371 0 0 0 341 331 61 290 365 841 0 0 0 -0.647 -0.756 1.385 2.630 4.187 0.422 0.930 80 468 18 10 Error -33 51 -31 41 -50
20 -1.371474e+00 1 1 20 1 5090 16390 110 1956 1911 263 335 368 356 100 98 0 3632 3638 461 329 386 795 100 100 0 0.491 0.476 0.479 0.477 0.056 0.473 0.956 80 521 4924 4885 -1.027 1621 3303 1576 3309 0

Total number of rows: 9568

Table truncated, full table size 1801 Kbytes.




Supplementary data files not provided
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