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Sample GSM9059 Query DataSets for GSM9059
Status Public on Jan 20, 2004
Title db/db 14-1
Sample type RNA
 
Channel 1
Source name ID:14-1, 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 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 1920 16380 100 1128 1115 155 1161 1184 180 3 0 0 441 436 76 454 458 66 13 2 0 2.538 2.556 2.243 4.421 6.050 0.264 0.009 80 507 -46 -64 1.344 -33 -13 -46 -18 -50
2 4.425670e-01 1 1 2 1 2090 16300 100 15426 15496 2539 1039 1108 668 100 100 0 7584 7646 1261 449 464 204 100 100 0 2.016 2.009 2.014 2.021 0.198 1.974 0.967 80 456 21522 21654 1.012 14387 7135 14457 7197 0
3 0 1 3 1 2250 16380 100 964 1000 244 904 986 691 2 0 0 617 667 219 410 433 209 50 22 0 0.290 0.374 0.500 1.194 2.109 0.597 0.297 80 443 267 353 -1.787 60 207 96 257 -50
4 0 1 4 1 2410 16290 100 210 310 220 827 844 178 0 0 0 405 399 101 382 392 75 22 7 0 -26.826 -30.412 8.641 16.730 20.054 0.904 0.056 80 526 -594 -500 Error -617 23 -517 17 -50
5 -6.538292e-01 1 1 5 1 2610 16380 90 964 956 157 696 735 181 67 28 0 778 748 156 357 385 116 92 80 0 0.637 0.665 0.667 0.721 0.395 0.722 0.592 52 357 689 651 -0.652 268 421 260 391 0
6 0 1 6 1 2740 16280 100 604 597 123 666 768 648 0 0 0 385 404 95 334 362 194 8 0 0 -1.216 -0.986 0.894 7.251 19.898 3.209 0.672 80 467 -11 1 Error -62 51 -69 70 -50
7 0 1 7 1 2900 16380 100 541 525 179 586 622 190 7 1 0 339 329 82 308 322 65 30 3 0 -1.452 -2.905 2.165 5.024 10.198 2.514 0.598 80 459 -14 -40 Error -45 31 -61 21 -50
8 -3.480026e-01 1 1 8 1 3080 16300 100 1424 1301 440 577 592 118 86 86 0 1179 1109 381 311 317 58 90 90 0 0.976 0.907 0.988 1.544 4.574 0.946 0.887 80 477 1715 1522 -0.035 847 868 724 798 0
9 0 1 9 1 3230 16380 100 284 311 114 523 552 184 1 0 0 285 285 57 304 313 59 5 0 0 12.579 11.158 6.595 9.036 10.208 1.977 0.300 80 414 -258 -231 3.653 -239 -19 -212 -19 -50
10 -1.228925e-01 1 1 10 1 3400 16290 110 823 824 131 463 467 77 95 95 0 655 649 96 282 287 46 100 96 0 0.965 0.984 0.970 1.038 0.384 0.941 0.730 80 540 733 728 -0.051 360 373 361 367 0
11 0 1 11 1 3560 16380 100 280 296 90 426 433 76 2 1 0 360 352 74 273 280 50 70 41 0 -1.678 -1.646 2.437 5.178 7.752 -0.093 0.004 80 442 -59 -51 Error -146 87 -130 79 -50
12 0 1 12 1 3710 16280 60 310 324 113 397 406 73 6 3 0 521 495 106 288 311 97 87 65 0 -0.373 -0.353 0.342 2.098 3.889 1.192 0.381 32 170 146 134 Error -87 233 -73 207 -50
13 -5.681772e-01 1 1 13 1 3880 16370 110 485 491 126 353 369 110 58 17 0 489 475 110 257 268 69 90 85 0 0.569 0.633 0.640 0.899 1.022 0.628 0.438 80 518 364 356 -0.814 132 232 138 218 0
14 6.212236e-01 1 1 14 1 4040 16280 110 2244 2132 456 361 433 460 97 90 0 1123 1073 232 252 267 92 98 96 0 2.162 2.157 2.190 2.279 0.739 2.057 0.922 80 531 2754 2592 1.112 1883 871 1771 821 0
15 -7.957628e-02 1 1 15 1 4210 16360 120 546 609 441 335 349 97 85 55 0 570 531 143 247 250 46 90 88 0 0.653 0.965 0.709 1.573 2.526 1.318 0.321 120 541 534 558 -0.614 211 323 274 284 0
16 9.023626e-02 1 1 16 1 4370 16280 100 654 687 144 325 338 77 100 96 0 543 550 75 234 239 41 100 100 0 1.065 1.146 1.066 1.165 0.447 1.026 0.708 80 469 638 678 0.090 329 309 362 316 0
17 9.630454e-01 1 1 17 1 4550 16350 80 439 445 87 294 299 67 88 55 0 329 327 53 237 245 45 82 51 0 1.576 1.678 1.434 1.835 1.219 1.115 0.471 52 323 237 241 0.656 145 92 151 90 0
18 0 1 18 1 4700 16280 100 282 286 66 270 278 54 21 10 0 270 272 49 228 234 39 51 21 0 0.286 0.364 1.025 2.144 3.670 0.364 0.065 80 462 54 60 -1.807 12 42 16 44 -50
19 0 1 19 1 4860 16370 100 238 245 68 273 287 85 3 1 0 262 257 48 243 248 47 27 2 0 -1.842 -2.000 1.499 4.292 9.821 0.298 0.039 80 477 -16 -14 Error -35 19 -28 14 -50
20 -1.435970e+00 1 1 20 1 5030 16290 110 1047 1069 197 307 333 126 100 100 0 1978 1917 328 251 260 61 100 100 0 0.428 0.457 0.454 0.478 0.179 0.406 0.759 80 561 2467 2428 -1.223 740 1727 762 1666 0

Total number of rows: 9568

Table truncated, full table size 1761 Kbytes.




Supplementary data files not provided
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