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Sample GSM48407 Query DataSets for GSM48407
Status Public on Apr 21, 2005
Title R-2-cDNA-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 18, 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 GPL1968
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 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
Ratio of Means
Median of Ratios
Mean of Ratios
Ratios SD
Rgn Ratio
Rgn R²
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.
Flags the type of flag associated with a feature.

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 Ratio of Means Median of Ratios Mean of Ratios Ratios SD Rgn Ratio Rgn R² F Pixels B Pixels Sum of Medians Sum of Means VALUE F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 Flags
1 2340 16500 90 3371 3669 1437 50 54 25 100 100 0 2602 2794 1006 74 76 22 100 100 0 1.314 1.331 1.331 1.32 1.097 1.336 0.99 52 412 5849 6339 0.394 3321 2528 3619 2720 0
2 2550 16500 70 325 580 561 51 53 13 100 100 0 276 435 389 74 74 13 100 96 0 1.356 1.465 1.393 1.445 1.405 1.464 0.979 32 236 476 890 0.44 274 202 529 361 0
3 2730 16490 100 58 274 488 49 50 12 43 31 0 79 249 391 72 73 14 32 26 0 1.286 1.271 1.282 1.221 2.466 1.263 0.977 80 522 16 402 0.363 9 7 225 177 -50
4 2920 16500 90 2360 2435 558 50 52 16 100 100 0 1614 1688 371 70 73 16 100 100 0 1.496 1.474 1.501 1.473 1.078 1.47 0.994 52 414 3854 4003 0.581 2310 1544 2385 1618 0
5 3120 16500 90 492 489 81 51 53 15 100 100 0 510 523 86 72 74 16 100 100 0 1.007 0.971 1.001 0.971 1.24 0.986 0.937 52 420 879 889 0.01 441 438 438 451 0
6 3310 16500 90 1469 1468 250 50 55 40 100 100 0 915 951 150 73 75 28 100 100 0 1.685 1.615 1.62 1.613 1.102 1.595 0.982 52 420 2261 2296 0.753 1419 842 1418 878 0
7 3520 16510 100 2352 2221 841 50 53 18 100 100 0 3803 3448 1172 72 74 21 100 100 0 0.617 0.643 0.639 0.633 1.13 0.658 0.983 80 516 6033 5547 -0.697 2302 3731 2171 3376 0
8 3700 16500 90 543 538 185 50 56 31 100 100 0 583 608 145 72 78 41 100 100 0 0.965 0.91 0.897 0.88 1.235 0.977 0.933 52 407 1004 1024 -0.052 493 511 488 536 0
9 3900 16500 90 704 742 172 51 53 18 100 100 0 470 471 93 73 75 14 100 100 0 1.645 1.736 1.723 1.742 1.235 1.784 0.94 52 420 1050 1089 0.718 653 397 691 398 0
10 4090 16500 90 290 299 145 49 51 13 100 100 0 366 398 108 70 73 20 100 100 0 0.814 0.762 0.749 0.669 1.487 0.896 0.875 52 415 537 578 -0.297 241 296 250 328 0
11 4290 16500 90 1066 1106 334 47 50 32 100 100 0 1341 1339 406 68 72 39 100 100 0 0.8 0.833 0.825 0.837 1.134 0.829 0.98 52 420 2292 2330 -0.321 1019 1273 1059 1271 0
12 4490 16500 100 291 323 120 48 52 32 100 100 0 369 392 125 69 72 36 100 100 0 0.81 0.851 0.806 0.838 1.306 0.929 0.908 80 534 543 598 -0.304 243 300 275 323 0
13 4690 16500 90 306 319 134 49 51 14 100 100 0 477 461 136 72 74 19 100 100 0 0.635 0.694 0.645 0.656 1.3 0.767 0.908 52 414 662 659 -0.656 257 405 270 389 0
14 4880 16500 90 193 192 73 49 51 12 100 98 0 226 230 83 72 73 13 100 100 0 0.935 0.905 0.902 0.896 1.449 0.964 0.883 52 414 298 301 -0.097 144 154 143 158 0
15 5080 16500 80 146 157 67 50 51 13 92 90 0 193 204 77 71 74 24 98 84 0 0.787 0.805 0.859 0.775 1.72 0.884 0.867 52 340 218 240 -0.346 96 122 107 133 0
16 5270 16500 80 162 172 86 49 51 12 96 94 0 205 226 91 73 75 15 100 100 0 0.856 0.804 0.76 0.731 2.154 0.957 0.776 52 334 245 276 -0.224 113 132 123 153 0
17 5470 16500 100 3223 2996 1019 50 51 12 100 100 0 1270 1164 386 72 74 14 100 100 0 2.649 2.698 2.728 2.706 1.11 2.702 0.99 80 500 4371 4038 1.405 3173 1198 2946 1092 0
18 5660 16500 100 2104 2112 1035 49 51 12 100 100 0 2031 2038 1049 71 73 15 100 100 0 1.048 1.049 1.047 1.071 1.121 1.035 0.992 80 489 4015 4030 0.068 2055 1960 2063 1967 0
19 5850 16490 90 345 373 158 50 51 12 100 100 0 375 409 142 72 72 14 100 100 0 0.974 0.958 0.934 0.934 1.227 0.998 0.94 52 408 598 660 -0.039 295 303 323 337 0
20 6050 16500 100 418 421 171 49 51 17 100 100 0 1655 1652 390 71 74 29 100 100 0 0.233 0.235 0.236 0.216 1.539 0.282 0.809 80 519 1953 1953 -2.102 369 1584 372 1581 0

Total number of rows: 16192

Table truncated, full table size 2577 Kbytes.




Supplementary data files not provided
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