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Sample GSM48186 Query DataSets for GSM48186
Status Public on Apr 21, 2005
Title C-2-7
Sample type RNA
 
Channel 1
Source name cy3 Liver5
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name cy5 Liver3
Organism Mus musculus
Extracted molecule total RNA
 
 
Description Each laboratory was provided with aliquots of two different RNA samples that were prepared in one of the Consortium laboratories - a sample prepared from mouse livers (Liver RNA), and a sample prepared from equal amounts of RNA isolated from five mouse tissues (liver, kidney, lung, brain and spleen: Pooled RNA).
 
Submission date Apr 13, 2005
Last update date May 27, 2005
Contact name Kenneth Lyon Phillips
E-mail(s) [email protected]
Phone 919 425 3075
Organization name Paradigm Array Labs
Street address
City Research Triangle Park
State/province NC
ZIP/Postal code 27709
Country USA
 
Platform ID GPL1955
Series (1)
GSE2458 Cross-platform comparability of microarray data

Data table header descriptions
ID_REF
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 median feature pixel intensity at wavelength 1 (635 nm).
F635 Mean mean feature pixel intensity at wavelength 1 (635 nm).
F635 SD the standard deviation of the feature pixel intensity at wavelength 1 (635 nm).
B635 Median the median feature background intensity at wavelength 1 (635 nm).
B635 Mean the mean feature background intensity at wavelength 1 (635 nm).
B635 SD
% > B635+1SD
% > B635+2SD
F635 % Sat.
F532 Median median feature pixel intensity at wavelength 2 (532 nm).
F532 Mean mean feature pixel intensity at wavelength 2 (532 nm).
F532 SD
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
% > B532+2SD
F532 % Sat. the percentage of feature pixels at wavelength 2 that are saturated.
Ratio of Medians (635/532) the ratio of the median intensities of each feature for each wavelength, with the median background subtracted.
Ratio of Means (635/532) the ratio of the arithmetic mean intensities of each feature for each wavelength, with the median background subtracted.
Median of Ratios (635/532) the median of pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Mean of Ratios (635/532) the geometric mean of the pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Ratios SD (635/532) the geometric standard deviation of the pixel intensity ratios.
Rgn Ratio (635/532) the regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.
Rgn R� (635/532) the coefficient of determination for the current regression value.
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.
VALUE log (base 2) transform of the ratio of the medians.
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.
F635 Total Intensity Total Intensity = the sum of feature pixel intensities at wavelength 1
F532 Total Intensity Total Intensity = the sum of feature pixel intensities at wavelength 1
SNR 635 the signal-to-noise ratio at wavelength 1, defined by (Mean Foreground 1- Mean Background 1) / (Standard deviation of Background 1)
SNR 532 the signal-to-noise ratio at wavelength 1, defined by (Mean Foreground 1- Mean Background 1) / (Standard deviation of Background 1)
Flags the type of flag associated with a feature.
Normalize the normalization status of the feature (included/not included).

Data table
ID_REF 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 (635/532) Ratio of Means (635/532) Median of Ratios (635/532) Mean of Ratios (635/532) Ratios SD (635/532) Rgn Ratio (635/532) Rgn R� (635/532) F Pixels B Pixels Sum of Medians Sum of Means VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 F635 Total Intensity F532 Total Intensity SNR 635 SNR 532 Flags Normalize
1 1760 11630 120 822 851 302 43 44 10 100 100 0 720 736 237 54 55 10 100 100 0 1.170 1.185 1.186 1.174 1.118 1.198 0.988 120 470 1445 1490 0.226 779 666 808 682 102091 88363 80.700 68.100 0 0
2 1940 11630 100 171 171 45 41 42 9 100 100 0 193 199 37 52 53 11 100 100 0 0.922 0.884 0.854 0.852 1.323 0.911 0.895 80 424 271 277 -0.117 130 141 130 147 13668 15957 14.333 13.273 0 0
3 2120 11630 100 257 264 68 42 42 8 100 100 0 262 272 59 52 52 7 100 100 0 1.024 1.009 0.981 0.999 1.245 1.024 0.936 80 442 425 442 0.034 215 210 222 220 21152 21766 27.750 31.429 0 0
4 2300 11630 110 771 819 271 41 42 9 100 100 0 776 811 245 52 52 6 100 100 0 1.008 1.025 1.021 1.017 1.114 1.024 0.977 80 484 1454 1537 0.012 730 724 778 759 65534 64919 86.333 126.500 0 0
5 2480 11630 100 66 66 17 40 41 9 86 68 0 101 106 16 51 51 9 100 100 0 0.520 0.473 0.494 0.450 1.856 0.497 0.504 80 442 76 81 -0.943 26 50 26 55 5316 8471 2.778 6.111 0 0
6 2660 11630 100 311 318 67 40 41 9 100 100 0 327 323 48 51 51 10 100 100 0 0.982 1.022 1.029 1.010 1.235 1.048 0.939 80 442 547 550 -0.026 271 276 278 272 25415 25809 30.778 27.200 0 0
7 2840 11630 110 438 465 134 41 42 11 100 100 0 442 466 114 51 52 20 100 100 0 1.015 1.022 1.029 1.009 1.146 1.062 0.968 80 484 788 839 0.022 397 391 424 415 37201 37275 38.455 20.700 0 0
8 3020 11620 100 55 58 14 42 44 13 48 22 0 98 97 17 53 60 38 65 3 0 0.289 0.364 0.364 0.324 2.358 0.311 0.468 80 426 58 60 -1.791 13 45 16 44 4623 7736 1.077 0.974 -50 0
9 3200 11630 100 67 84 48 41 48 114 7 0 0 100 106 23 50 78 460 0 0 0 0.520 0.768 0.542 0.534 2.772 0.758 0.410 80 442 76 99 -0.943 26 50 43 56 6722 8445 0.316 0.061 0 0
10 3380 11630 100 77 86 37 37 44 113 8 0 0 109 112 18 35 62 459 0 0 0 0.541 0.636 0.504 0.495 2.276 0.830 0.610 80 442 114 126 -0.888 40 74 49 77 6889 8930 0.372 0.109 0 0
11 3560 11630 100 268 279 96 39 51 129 96 28 0 247 265 148 48 94 648 1 1 0 1.151 1.106 1.185 1.133 1.255 0.944 0.879 80 452 428 457 0.203 229 199 240 217 22306 21190 1.767 0.264 0 0
12 3750 11630 100 952 956 168 41 55 132 100 100 0 857 864 128 53 108 660 91 0 0 1.133 1.128 1.129 1.123 1.126 0.405 0.463 80 440 1715 1726 0.180 911 804 915 811 76489 69084 6.826 1.145 0 0
13 3920 11630 110 87 88 35 41 43 11 88 71 0 113 116 20 53 55 20 100 87 0 0.767 0.746 0.724 0.597 2.208 0.729 0.580 80 470 106 110 -0.383 46 60 47 63 7052 9299 4.091 3.050 0 0
14 4100 11630 100 67 69 14 42 43 9 93 65 0 110 112 16 52 53 9 100 100 0 0.431 0.450 0.419 0.401 1.862 0.453 0.491 80 442 83 87 -1.214 25 58 27 60 5532 8948 2.889 6.556 0 0
15 4280 11630 110 82 90 30 42 43 10 97 86 0 114 120 27 53 55 25 97 77 0 0.656 0.716 0.696 0.657 1.623 0.770 0.710 80 484 101 115 -0.609 40 61 48 67 7163 9587 4.700 2.600 0 0
16 4460 11630 110 70 71 17 42 43 10 90 62 0 113 113 13 53 53 7 100 100 0 0.467 0.483 0.446 0.425 1.916 0.508 0.496 80 484 88 89 -1.100 28 60 29 60 5648 9002 2.800 8.571 0 0
17 4640 11630 110 70 76 29 42 44 16 72 37 0 104 109 18 53 55 26 98 48 0 0.549 0.607 0.543 0.496 2.138 0.787 0.526 80 484 79 90 -0.865 28 51 34 56 6097 8706 2.000 2.077 0 0
18 4820 11630 110 94 93 21 42 47 56 37 0 0 131 132 17 53 67 168 0 0 0 0.667 0.646 0.660 0.593 1.533 0.361 0.906 80 484 130 130 -0.585 52 78 51 79 7434 10598 0.821 0.387 0 0
19 5000 11630 110 64 76 40 41 45 52 22 11 0 98 102 20 53 61 147 0 0 0 0.511 0.714 0.537 0.507 2.530 1.093 0.591 80 496 68 84 -0.968 23 45 35 49 6059 8125 0.596 0.279 0 0
20 5190 11630 110 122 126 29 41 41 8 100 100 0 153 153 25 53 52 6 100 100 0 0.810 0.850 0.823 0.841 1.396 0.915 0.850 80 496 181 185 -0.304 81 100 85 100 10118 12240 10.625 16.833 0 0

Total number of rows: 17664

Table truncated, full table size 3032 Kbytes.




Supplementary data files not provided
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