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Sample GSM48216 Query DataSets for GSM48216
Status Public on Apr 21, 2005
Title C-5-7
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) 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.
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.
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.
Ratio of Medians (532/635)
Ratio of Means (532/635)
Median of Ratios (532/635)
Mean of Ratios (532/635)
Ratios SD (532/635)
Rgn Ratio (532/635)
Rgn R² (532/635)
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.
F532 Median - B532 the median feature pixel intensity at wavelength 2 with the median background subtracted.
F635 Median - B635 the median 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 Mean - B635 the mean feature pixel intensity at wavelength 1 with the median background subtracted.
F532 Total Intensity Total Intensity = the sum of feature pixel intensities at wavelength 1
F635 Total Intensity Total Intensity = the sum of feature pixel intensities at wavelength 1
SNR 532 the signal-to-noise ratio at wavelength 1, defined by (Mean Foreground 1- Mean Background 1) / (Standard deviation of Background 1)
SNR 635 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. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. Ratio of Medians (532/635) Ratio of Means (532/635) Median of Ratios (532/635) Mean of Ratios (532/635) Ratios SD (532/635) Rgn Ratio (532/635) Rgn R² (532/635) F Pixels B Pixels Sum of Medians Sum of Means VALUE F532 Median - B532 F635 Median - B635 F532 Mean - B532 F635 Mean - B635 F532 Total Intensity F635 Total Intensity SNR 532 SNR 635 Flags Normalize
1 1820 7050 90 16741 18094 7613 337 1478 3807 100 92 0 65535 60284 11059 976 1999 2752 100 100 69 0.254 0.299 0.290 0.279 1.661 0.286 0.584 52 377 80963 77065 -1.977 16404 64559 17757 59308 940890 3134744 4.365 21.179 0 0
2 2000 7060 100 8505 8591 4945 140 1072 1695 93 83 0 13138 16224 11646 689 1633 2177 95 91 0 0.672 0.544 0.534 0.543 2.722 0.335 0.311 80 462 20814 23986 -0.574 8365 12449 8451 15535 687277 1297931 4.436 6.702 0 0
3 2180 7050 90 8155 9379 5400 227 1192 1877 92 88 0 28380 28531 12917 547 1589 2269 100 98 0 0.285 0.327 0.327 0.321 2.032 0.268 0.499 52 379 35761 37136 -1.812 7928 27833 9152 27984 487721 1483601 4.362 11.874 0 0
4 2350 7050 90 6473 7502 5736 220 1247 2167 86 59 0 24242 25611 11270 862 1818 2446 100 100 0 0.267 0.294 0.265 0.241 2.689 0.245 0.280 52 386 29633 32031 -1.903 6253 23380 7282 24749 390078 1331753 2.886 9.727 0 0
5 2540 7060 100 9171 9472 6141 196 1219 2099 88 72 0 25707 28231 17113 703 1740 2371 95 95 1 0.359 0.337 0.326 0.360 2.553 0.252 0.454 80 461 33979 36804 -1.478 8975 25004 9276 27528 757795 2258456 3.932 11.173 0 0
6 2720 7050 100 5570 6227 4942 125 1088 1702 77 62 0 9577 10408 6301 400 1543 2223 87 80 0 0.593 0.610 0.594 0.581 3.525 0.477 0.224 80 426 14622 16110 -0.753 5445 9177 6102 10008 498153 832617 3.019 3.988 0 0
7 2900 7050 100 7658 8341 5562 45 1041 1750 91 77 0 27151 28199 12247 552 1651 2418 98 98 0 0.286 0.300 0.274 0.261 2.791 0.217 0.340 80 446 34212 35943 -1.805 7613 26599 8296 27647 667299 2255955 4.171 10.979 0 0
8 3080 7050 80 5383 6243 3953 200 1073 1692 92 75 0 5547 6768 5141 802 1670 2201 75 55 0 1.092 1.013 1.064 1.142 3.249 0.701 0.143 52 334 9928 12009 0.127 5183 4745 6043 5966 324620 351938 3.056 2.316 0 0
9 3260 7050 90 9568 9945 4527 159 1156 1778 98 94 0 41577 40039 13069 896 1896 2572 100 100 3 0.231 0.250 0.249 0.237 1.912 0.199 0.484 52 379 50090 48929 -2.112 9409 40681 9786 39143 517126 2082053 4.943 14.830 0 0
10 3440 7060 100 6523 7888 5357 204 1227 1915 90 80 0 10858 12877 8574 738 1778 2330 92 80 0 0.624 0.633 0.635 0.664 3.524 0.389 0.162 80 462 16439 19823 -0.679 6319 10120 7684 12139 631064 1030143 3.478 4.764 0 0
11 3620 7050 100 7517 8538 5171 290 1287 1990 92 76 0 25539 27139 17369 740 1740 2270 93 88 2 0.291 0.312 0.302 0.350 3.093 0.205 0.332 80 426 32026 34647 -1.779 7227 24799 8248 26399 683047 2171101 3.644 11.189 0 0
12 3800 7050 100 6828 7598 5250 327 1312 1927 86 70 0 14383 17115 11094 700 1731 2394 96 86 0 0.475 0.443 0.435 0.412 2.873 0.277 0.250 80 446 20184 23686 -1.074 6501 13683 7271 16415 607808 1369187 3.262 6.426 0 0
13 3990 7050 100 7460 7866 5189 519 1499 1957 82 71 0 12954 14466 9814 817 1793 2309 93 80 0 0.572 0.538 0.530 0.578 3.036 0.380 0.267 80 434 19078 20996 -0.806 6941 12137 7347 13649 629288 1157319 3.253 5.489 0 0
14 4160 7050 100 5238 7077 5060 308 1438 2183 86 58 0 20720 22090 13014 808 1839 2409 100 92 1 0.248 0.318 0.270 0.304 2.829 0.208 0.254 80 434 24842 28051 -2.014 4930 19912 6769 21282 566194 1767164 2.583 8.406 0 0
15 4340 7050 90 9224 10607 7089 163 1308 2496 88 75 0 38513 39433 13745 810 2043 3784 100 100 5 0.240 0.270 0.255 0.232 2.048 0.253 0.492 52 386 46764 49067 -2.057 9061 37703 10444 38623 551551 2050517 3.726 9.881 0 0
16 4520 7050 90 6000 6712 4666 117 1469 3711 69 34 0 13141 14467 5989 928 2115 3902 100 80 0 0.482 0.487 0.441 0.394 2.887 0.368 0.278 52 387 18096 20134 -1.054 5883 12213 6595 13539 349045 752302 1.413 3.166 0 0
17 4710 7050 100 4787 5383 3847 188 1204 2299 76 50 0 14504 15394 8978 737 1870 2546 91 86 0 0.334 0.354 0.325 0.332 3.107 0.202 0.170 80 464 18366 19852 -1.582 4599 13767 5195 14657 430659 1231494 1.818 5.312 0 0
18 4890 7050 80 4967 6436 5284 183 1153 1950 75 61 0 8073 10458 7910 1024 1903 2375 88 65 0 0.679 0.663 0.680 0.633 3.568 0.422 0.164 52 322 11833 15687 -0.559 4784 7049 6253 9434 334668 543819 2.709 3.602 0 0
19 5070 7050 100 5080 5950 3996 213 1242 2068 80 61 0 6742 7571 5620 621 1504 1957 83 71 0 0.795 0.825 0.643 0.726 3.769 0.551 0.149 80 436 10988 12687 -0.331 4867 6121 5737 6950 476028 605686 2.277 3.100 0 0
20 5240 7040 90 4995 6746 4857 187 1061 1732 82 67 0 5594 6380 4294 765 1641 2243 78 53 0 0.996 1.168 0.918 0.933 3.856 1.168 0.069 52 378 9637 12174 -0.006 4808 4829 6559 5615 350770 331759 3.282 2.113 0 0

Total number of rows: 17664

Table truncated, full table size 3595 Kbytes.




Supplementary data files not provided
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