NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM9069 Query DataSets for GSM9069
Status Public on Jan 20, 2004
Title db/db 14-3
Sample type RNA
 
Channel 1
Source name ID:14-3, 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 1890 16420 100 252 285 142 301 319 96 7 3 0 204 211 47 227 236 55 5 2 0 2.130 1.000 1.658 3.658 4.717 1.828 0.497 80 490 -72 -32 1.091 -49 -23 -16 -16 -50
2 5.211774e-01 1 1 2 1 2060 16330 110 26177 24966 4425 344 377 175 100 100 0 11708 11150 2147 261 270 68 100 100 0 2.257 2.261 2.245 2.310 0.442 2.162 0.940 80 556 37280 35511 1.174 25833 11447 24622 10889 0
3 3.938524e-01 1 1 3 1 2230 16430 110 3655 3717 987 349 361 113 100 98 0 2030 2076 656 257 265 54 100 100 0 1.865 1.852 1.930 2.072 1.328 1.727 0.907 80 472 5079 5187 0.899 3306 1773 3368 1819 0
4 0 1 4 1 2390 16330 110 186 186 66 284 312 177 0 0 0 1222 1189 387 242 364 1177 28 0 0 -0.100 -0.103 0.057 0.741 1.684 0.083 0.310 80 542 882 849 Error -98 980 -98 947 0
5 -5.495192e-02 1 1 5 1 2550 16410 110 4064 3857 830 283 296 72 100 100 0 2961 2805 714 244 256 77 100 100 0 1.392 1.396 1.393 1.458 0.397 1.331 0.939 80 518 6498 6135 0.477 3781 2717 3574 2561 0
6 -2.334862e-01 1 1 6 1 2730 16340 90 1376 1337 375 283 293 68 100 100 0 1179 1254 432 241 254 85 100 100 0 1.165 1.040 1.105 1.103 0.259 0.926 0.887 52 404 2031 2067 0.221 1093 938 1054 1013 0
7 1.009838e+00 1 1 7 1 2910 16430 90 677 655 126 303 410 504 3 0 0 539 516 113 271 300 145 84 38 0 1.396 1.437 1.404 1.766 1.577 2.349 0.566 52 361 642 597 0.481 374 268 352 245 0
8 -1.992254e-01 1 1 8 1 3050 16330 110 4846 4684 1306 329 449 521 97 95 0 3640 3512 1227 266 300 161 97 97 0 1.339 1.342 1.357 1.473 0.843 1.191 0.860 80 558 7891 7601 0.421 4517 3374 4355 3246 0
9 8.000677e-01 1 1 9 1 3210 16430 100 627 629 151 338 355 113 87 63 0 528 520 115 264 270 53 93 92 0 1.095 1.137 1.166 1.664 2.930 0.982 0.544 80 436 553 547 0.131 289 264 291 256 0
10 -5.708985e-02 1 1 10 1 3360 16330 100 3068 3021 668 356 385 209 100 100 0 2228 2235 446 263 274 104 100 100 0 1.380 1.351 1.348 1.392 0.427 1.336 0.928 80 495 4677 4637 0.465 2712 1965 2665 1972 0
11 2.928607e-02 1 1 11 1 3540 16420 100 666 637 169 362 385 187 70 30 0 660 633 215 267 279 101 87 81 0 0.774 0.751 0.722 1.073 1.564 0.646 0.587 80 404 697 641 -0.370 304 393 275 366 0
12 -2.529278e+00 1 1 12 1 3680 16320 100 554 545 131 347 360 107 80 46 0 1430 1454 449 260 274 68 100 100 0 0.177 0.166 0.180 0.187 0.129 0.154 0.433 80 447 1377 1392 -2.499 207 1170 198 1194 0
13 -6.921281e-02 1 1 13 1 3840 16410 110 1705 1646 308 357 369 107 100 100 0 1365 1333 271 262 269 57 100 100 0 1.222 1.204 1.229 1.226 0.218 1.162 0.919 80 499 2451 2360 0.289 1348 1103 1289 1071 0
14 6.787768e-01 1 1 14 1 4020 16310 110 9047 8647 1763 340 362 124 100 100 0 3846 3503 998 252 259 59 100 100 0 2.423 2.555 2.546 2.963 1.897 2.379 0.950 80 575 12301 11558 1.277 8707 3594 8307 3251 0
15 -3.207568e-01 1 1 15 1 4180 16410 100 1800 1746 397 386 392 85 100 98 0 1590 1588 406 269 276 54 97 97 0 1.070 1.031 1.060 1.185 1.339 0.984 0.908 80 436 2735 2679 0.098 1414 1321 1360 1319 0
16 7.307909e-02 1 1 16 1 4340 16320 110 1769 1740 302 360 374 86 100 100 0 1304 1291 185 258 265 54 100 100 0 1.347 1.336 1.322 1.344 0.258 1.294 0.913 80 542 2455 2413 0.430 1409 1046 1380 1033 0
17 9.693075e-01 1 1 17 1 4500 16410 110 884 859 168 352 361 72 97 93 0 569 566 129 257 267 55 95 91 0 1.705 1.641 1.777 1.830 0.905 1.378 0.733 80 525 844 816 0.770 532 312 507 309 0
18 1.033167e+00 1 1 18 1 4680 16320 90 567 562 103 351 357 63 90 86 0 459 457 81 249 257 52 96 90 0 1.029 1.014 1.040 1.253 0.873 0.797 0.497 52 389 426 419 0.041 216 210 211 208 0
19 0 1 19 1 4830 16410 100 234 240 67 357 364 63 0 0 0 335 331 70 261 271 69 52 12 0 -1.662 -1.671 3.068 11.081 16.430 -0.141 0.015 80 443 -49 -47 Error -123 74 -117 70 -50
20 -1.662656e+00 1 1 20 1 5000 16330 100 3539 3501 429 384 406 147 100 100 0 6831 6661 815 266 276 63 100 100 0 0.481 0.487 0.493 0.489 0.049 0.471 0.945 80 473 9720 9512 -1.057 3155 6565 3117 6395 0

Total number of rows: 9568

Table truncated, full table size 1804 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap