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Sample GSM9154 Query DataSets for GSM9154
Status Public on Jan 20, 2004
Title db/db 9-1
Sample type RNA
 
Channel 1
Source name ID:9-1, 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 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 1870 18470 100 776 792 149 758 758 119 17 8 0 785 784 144 712 723 148 30 6 0 0.247 0.472 0.949 1.556 2.415 0.345 0.192 80 528 91 106 -2.020 18 73 34 72 -50
2 5.742420e-03 1 1 2 1 2060 18370 80 20475 21319 7109 648 680 178 100 100 0 16791 17631 5613 600 638 197 100 100 0 1.225 1.214 1.174 1.296 0.693 1.159 0.921 52 332 36018 37702 0.292 19827 16191 20671 17031 0
3 1.859463e+00 1 1 3 1 2220 18460 60 1703 1945 912 911 1219 2051 12 0 0 1548 1541 672 880 1266 2108 3 0 0 1.186 1.564 1.384 2.110 2.327 0.609 0.638 32 176 1460 1695 0.246 792 668 1034 661 0
4 0 1 4 1 2370 18370 100 535 559 266 811 883 319 2 1 0 838 867 282 783 871 357 17 3 0 -5.018 -3.000 1.710 3.834 5.532 0.625 0.391 80 511 -221 -168 Error -276 55 -252 84 -50
5 3.661163e-01 1 1 5 1 2530 18450 60 2493 2472 653 752 785 231 96 96 0 2355 2322 583 666 730 277 96 96 0 1.031 1.039 1.054 1.088 0.323 0.987 0.885 32 176 3430 3376 0.044 1741 1689 1720 1656 0
6 0 1 6 1 2690 18370 100 749 816 254 687 759 362 17 1 0 738 828 346 597 683 352 21 12 0 0.440 0.558 1.051 2.135 3.809 0.597 0.566 80 506 203 360 -1.185 62 141 129 231 -50
7 0 1 7 1 2860 18460 100 687 685 143 733 775 237 2 0 0 544 584 151 610 670 247 8 0 0 0.697 1.846 1.064 1.422 1.819 0.658 0.583 80 511 -112 -74 -0.521 -46 -66 -48 -26 -50
8 1.896141e-02 1 1 8 1 3040 18380 80 2240 2249 569 685 730 231 100 100 0 2510 2479 654 597 652 243 100 100 0 0.813 0.831 0.815 0.855 0.254 0.815 0.873 52 328 3468 3446 -0.299 1555 1913 1564 1882 0
9 0 1 9 1 3190 18460 100 511 549 186 686 827 1404 0 0 0 438 493 198 575 730 1429 0 0 0 1.277 1.671 1.307 2.346 4.689 0.691 0.674 80 491 -312 -219 0.353 -175 -137 -137 -82 -50
10 -5.131400e-01 1 1 10 1 3350 18370 70 1154 1275 380 610 855 2013 0 0 0 1597 1629 524 553 772 2043 6 0 0 0.521 0.618 0.632 0.644 0.231 0.609 0.789 32 236 1588 1741 -0.940 544 1044 665 1076 0
11 1.228788e-01 1 1 11 1 3530 18460 80 1136 1148 360 666 692 211 75 53 0 1168 1132 320 490 537 229 88 71 0 0.693 0.751 0.827 1.066 1.446 0.667 0.597 52 337 1148 1124 -0.529 470 678 482 642 0
12 -2.421388e+00 1 1 12 1 3680 18370 80 925 931 289 704 735 223 50 23 0 1889 2073 707 478 538 247 100 98 0 0.157 0.142 0.180 0.202 0.115 0.197 0.349 52 338 1632 1822 -2.675 221 1411 227 1595 0
13 -5.228303e-01 1 1 13 1 3850 18460 70 1620 1560 394 672 704 255 96 84 0 2063 2030 397 448 516 266 100 100 0 0.587 0.561 0.563 0.558 0.221 0.593 0.739 32 236 2563 2470 -0.769 948 1615 888 1582 0
14 8.567884e-01 1 1 14 1 4010 18360 80 2747 2647 1044 438 489 200 100 100 0 1754 1880 644 388 450 241 100 100 0 1.690 1.481 1.426 1.528 0.526 1.350 0.817 52 334 3675 3701 0.757 2309 1366 2209 1492 0
15 0 1 15 1 4170 18450 80 1437 1514 552 485 523 178 100 94 0 1564 1753 638 435 484 198 100 96 0 0.843 0.781 0.728 0.798 0.280 0.763 0.852 52 334 2081 2347 -0.246 952 1129 1029 1318 -50
16 0 1 16 1 4330 18360 80 1244 1216 292 613 653 209 90 65 0 1353 1421 398 470 533 242 98 94 0 0.715 0.634 0.598 0.642 0.231 0.586 0.776 52 320 1514 1554 -0.485 631 883 603 951 -50
17 0 1 17 1 4450 18490 110 852 893 274 621 654 186 53 38 0 905 995 378 486 537 235 76 47 0 0.551 0.534 0.537 0.721 0.767 0.509 0.600 80 395 650 781 -0.859 231 419 272 509 -50
18 0 1 18 1 4660 18350 100 697 706 175 570 615 261 17 3 0 586 631 195 448 540 348 12 2 0 0.920 0.743 0.958 1.319 1.240 0.585 0.665 80 439 265 319 -0.120 127 138 136 183 -50
19 0 1 19 1 4830 18440 100 379 419 178 642 669 244 3 0 0 412 455 218 470 558 327 6 3 0 4.534 14.867 2.419 4.782 7.817 0.612 0.611 80 423 -321 -238 2.181 -263 -58 -223 -15 -50
20 -1.512664e+00 1 1 20 1 4990 18350 80 2548 2489 818 670 681 108 100 100 0 6427 6170 2328 433 442 100 100 100 0 0.313 0.317 0.314 0.325 0.098 0.309 0.833 52 332 7872 7556 -1.674 1878 5994 1819 5737 0

Total number of rows: 9568

Table truncated, full table size 1780 Kbytes.




Supplementary data files not provided
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