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Sample GSM9156 Query DataSets for GSM9156
Status Public on Jan 20, 2004
Title db/db 10-5
Sample type RNA
 
Channel 1
Source name ID:10-5, 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 2160 18810 100 426 428 73 409 426 88 11 3 0 281 286 57 285 302 100 3 1 0 -4.250 19.000 1.390 3.358 5.352 0.489 0.136 80 529 13 20 Error 17 -4 19 1 -50
2 -1.509571e-01 1 1 2 1 2340 18710 90 38587 35559 9324 434 465 116 100 100 0 33990 31320 8234 297 327 111 100 100 0 1.132 1.132 1.138 1.155 0.206 1.094 0.901 52 407 71846 66148 0.179 38153 33693 35125 31023 0
3 1.054196e+00 1 1 3 1 2490 18810 90 1949 2321 1653 416 431 97 100 100 0 1062 1564 1158 281 296 84 98 94 0 1.963 1.485 1.365 2.594 4.595 1.327 0.832 52 411 2314 3188 0.973 1533 781 1905 1283 0
4 -3.599995e+00 1 1 4 1 2660 18720 90 563 581 189 445 458 78 57 44 0 1813 1845 779 291 306 76 100 100 0 0.078 0.088 0.141 0.160 0.103 0.090 0.257 52 408 1640 1690 -3.689 118 1522 136 1554 0
5 2.030414e-01 1 1 5 1 2820 18800 80 2961 2756 1379 439 450 80 100 96 0 3046 2760 1652 283 292 59 92 90 0 0.913 0.935 0.924 2.661 8.820 0.856 0.904 52 339 5285 4794 -0.132 2522 2763 2317 2477 0
6 -3.626815e-01 1 1 6 1 2980 18710 60 1705 1613 759 441 452 118 96 90 0 2280 2131 1029 299 323 107 100 96 0 0.638 0.640 0.617 0.761 0.633 0.554 0.658 32 170 3245 3004 -0.648 1264 1981 1172 1832 0
7 3.792650e-01 1 1 7 1 3130 18810 60 448 498 145 341 349 56 75 46 0 494 530 192 275 281 59 84 78 0 0.489 0.616 0.466 0.898 1.363 0.509 0.514 32 176 326 412 -1.033 107 219 157 255 0
8 -5.786758e-01 1 1 8 1 3320 18740 90 1457 1442 647 322 338 86 96 92 0 2367 2242 957 267 289 99 100 98 0 0.540 0.567 0.563 0.577 0.248 0.543 0.844 52 387 3235 3095 -0.888 1135 2100 1120 1975 0
9 0 1 9 1 3470 18810 100 316 307 69 319 328 70 10 0 0 286 294 77 257 267 58 23 7 0 -0.103 -0.324 1.280 4.259 10.586 0.381 0.151 80 508 26 25 Error -3 29 -12 37 -50
10 -3.041902e-01 1 1 10 1 3650 18720 80 567 650 261 300 309 70 90 78 0 791 865 371 253 263 59 100 98 0 0.496 0.572 0.575 0.663 0.602 0.515 0.661 52 340 805 962 -1.011 267 538 350 612 0
11 -6.567974e-01 1 1 11 1 3800 18800 50 321 332 63 300 307 47 41 16 0 462 458 42 265 275 56 100 100 0 0.107 0.166 0.378 0.450 0.319 0.146 0.063 12 104 218 225 -3.230 21 197 32 193 0
12 -3.159571e+00 1 1 12 1 3960 18730 80 337 344 79 301 305 39 46 23 0 905 898 337 261 271 52 98 94 0 0.056 0.068 0.097 0.175 0.191 0.049 0.090 52 340 680 680 -4.161 36 644 43 637 0
13 -8.562654e-01 1 1 13 1 4140 18810 70 426 416 106 313 326 72 65 25 0 632 628 176 265 290 115 93 75 0 0.308 0.284 0.287 0.499 0.736 0.231 0.229 32 236 480 466 -1.699 113 367 103 363 0
14 9.346251e-01 1 1 14 1 4300 18720 80 1319 1378 414 319 327 51 100 100 0 1068 1085 337 265 281 117 100 96 0 1.245 1.291 1.261 1.439 0.776 1.184 0.863 52 338 1803 1879 0.317 1000 803 1059 820 0
15 2.992579e-01 1 1 15 1 4450 18810 90 854 963 274 312 314 35 100 100 0 974 1031 364 259 276 111 100 98 0 0.758 0.843 0.786 0.968 0.554 0.744 0.785 52 402 1257 1423 -0.400 542 715 651 772 0
16 -4.186016e-01 1 1 16 1 4630 18710 60 636 648 82 330 331 47 100 100 0 888 894 108 278 292 65 100 100 0 0.502 0.516 0.528 0.525 0.145 0.468 0.692 32 170 916 934 -0.995 306 610 318 616 0
17 0 1 17 1 4780 18800 100 371 374 47 355 359 46 17 8 0 280 288 49 288 298 56 8 3 0 -2.000 100000.000 1.016 1.655 1.700 0.304 0.106 80 494 8 19 Error 16 -8 19 0 -50
18 -3.850440e-01 1 1 18 1 4960 18690 50 606 577 114 414 427 65 75 66 0 631 708 280 344 354 64 100 91 0 0.669 0.448 0.661 0.575 0.277 0.283 0.275 12 90 479 527 -0.580 192 287 163 364 0
19 0 1 19 1 5110 18800 100 421 416 140 446 453 59 27 12 0 378 395 93 335 347 76 37 16 0 -0.581 -0.500 2.451 5.046 8.847 0.281 0.064 80 490 18 30 Error -25 43 -30 60 -50
20 -1.998333e+00 1 1 20 1 5280 18710 80 1992 1890 717 419 423 54 100 100 0 6822 5986 3269 300 309 61 100 100 0 0.241 0.259 0.242 0.352 0.323 0.226 0.832 52 326 8095 7157 -2.052 1573 6522 1471 5686 0

Total number of rows: 9568

Table truncated, full table size 1799 Kbytes.




Supplementary data files not provided
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