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Sample GSM48183 Query DataSets for GSM48183
Status Public on Apr 21, 2005
Title C-2-4
Sample type RNA
 
Channel 1
Source name cy3 Pool
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name cy5 Liver5
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) kphillips@icoria.com
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 µm 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 µm 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 µm 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 R² (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 R² (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 1600 12230 110 3850 3967 1209 56 65 81 100 100 0 2898 2903 717 43 56 169 100 100 0 1.329 1.367 1.336 1.343 1.255 1.439 0.904 80 458 6649 6771 0.410 3794 2855 3911 2860 317349 232273 48.173 16.846 0 0
2 1780 12240 100 970 1073 481 52 56 31 100 100 0 2555 2687 765 41 45 30 100 100 0 0.365 0.386 0.377 0.351 1.517 0.388 0.863 80 426 3432 3667 -1.453 918 2514 1021 2646 85842 214987 32.806 88.067 0 0
3 1960 12240 100 1142 1180 477 52 54 19 100 100 0 1002 1042 363 41 44 19 100 100 0 1.134 1.127 1.131 1.096 1.474 1.167 0.904 80 414 2051 2129 0.182 1090 961 1128 1001 94398 83369 59.263 52.526 0 0
4 2130 12240 100 2255 2389 907 52 55 22 100 100 0 1564 1637 577 40 42 22 100 100 0 1.446 1.463 1.482 1.452 1.273 1.487 0.902 80 414 3727 3934 0.532 2203 1524 2337 1597 191104 130983 106.091 72.500 0 0
5 2310 12240 100 844 897 411 54 57 23 100 100 0 766 755 263 41 43 16 100 100 0 1.090 1.181 1.117 1.126 1.436 1.240 0.833 80 426 1515 1557 0.124 790 725 843 714 71776 60398 36.522 44.500 0 0
6 2490 12240 100 1371 1508 574 51 55 21 100 100 0 1768 1739 489 41 44 32 100 100 0 0.764 0.858 0.815 0.838 1.451 0.870 0.871 80 426 3047 3155 -0.388 1320 1727 1457 1698 120618 139152 69.190 52.969 0 0
7 2670 12240 110 2462 2435 624 51 58 48 100 100 0 2400 2469 501 42 60 273 100 100 0 1.022 0.982 1.008 0.960 1.479 0.988 0.851 80 464 4769 4811 0.032 2411 2358 2384 2427 194808 197553 49.521 8.824 0 0
8 2850 12240 100 494 591 385 50 57 50 98 93 0 485 506 278 41 60 283 66 33 0 1.000 1.163 1.147 1.091 1.851 0.629 0.347 80 426 888 1006 0.000 444 444 541 465 47291 40514 10.680 1.576 0 0
9 3030 12240 100 659 850 566 51 54 21 98 98 0 1014 1080 390 40 42 14 100 100 0 0.624 0.768 0.644 0.596 2.009 0.879 0.733 80 426 1582 1839 -0.680 608 974 799 1040 67992 86431 37.905 74.143 0 0
10 3210 12240 110 1300 1310 574 54 60 29 100 98 0 1070 1011 375 42 46 24 100 100 0 1.212 1.296 1.275 1.214 1.820 1.344 0.876 80 476 2274 2225 0.277 1246 1028 1256 969 104833 80850 43.103 40.208 0 0
11 3390 12240 110 1594 1643 589 52 68 116 98 95 0 1316 1313 425 43 57 161 100 98 0 1.211 1.253 1.311 1.171 1.861 1.284 0.786 80 464 2815 2861 0.277 1542 1273 1591 1270 131409 105045 13.578 7.801 0 0
12 3570 12240 110 3022 3027 860 50 79 219 98 97 0 2989 2895 694 41 54 160 100 100 0 1.008 1.043 1.061 1.016 1.595 1.054 0.891 80 464 5920 5831 0.012 2972 2948 2977 2854 242122 231620 13.461 17.756 0 0
13 3750 12240 110 560 649 383 55 74 184 88 66 0 689 734 290 44 53 42 100 98 0 0.783 0.861 0.782 0.761 1.808 0.940 0.786 80 464 1150 1284 -0.353 505 645 594 690 51938 58707 3.125 16.214 0 0
14 3930 12240 100 575 696 475 56 61 35 100 96 0 546 571 327 44 54 100 93 75 0 1.034 1.214 1.167 1.112 1.917 1.336 0.743 80 426 1021 1167 0.048 519 502 640 527 55706 45719 18.143 5.170 0 0
15 4110 12240 100 204 232 141 57 67 68 81 53 0 184 243 145 44 57 106 73 36 0 1.050 0.879 0.862 0.835 1.794 0.898 0.671 80 426 287 374 0.070 147 140 175 199 18533 19430 2.426 1.755 0 0
16 4290 12240 110 307 422 336 52 57 28 98 97 0 324 391 257 42 46 39 100 97 0 0.904 1.060 1.016 0.908 1.885 1.189 0.780 80 476 537 719 -0.145 255 282 370 349 33725 31309 13.036 8.846 0 0
17 4470 12240 100 469 578 371 53 59 36 100 96 0 433 511 266 43 53 78 97 95 0 1.067 1.122 1.129 1.036 1.969 1.158 0.757 80 426 806 993 0.093 416 390 525 468 46237 40880 14.417 5.872 0 0
18 4650 12240 110 718 746 377 54 60 35 97 96 0 653 711 288 43 55 129 98 96 0 1.089 1.036 0.997 0.914 2.005 1.020 0.735 80 476 1274 1360 0.122 664 610 692 668 59659 56853 19.600 5.085 0 0
19 4840 12250 100 626 700 403 54 57 20 100 100 0 568 599 451 41 43 13 98 96 0 1.085 1.158 1.161 1.239 1.861 1.067 0.642 80 452 1099 1204 0.118 572 527 646 558 55995 47885 32.150 42.769 0 0
20 5020 12250 100 299 414 472 56 58 21 100 100 0 250 286 123 41 43 13 100 100 0 1.163 1.461 1.158 1.219 1.697 2.908 0.390 80 442 452 603 0.217 243 209 358 245 33092 22903 16.952 18.692 0 0

Total number of rows: 17664

Table truncated, full table size 3112 Kbytes.




Supplementary data files not provided
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