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Sample GSM13760 Query DataSets for GSM13760
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=6(2) batch I
Sample type RNA
 
Channel 1
Source name KM109 t=0
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name KM109 t=6
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Timecourse experiment hybridized to human oligo array part I. Healthy human primary myoblasts (KM109) just before fusion (channel 1, t=0) and six days after fusion initiation (channel 2, t=6)
 
Submission date Dec 16, 2003
Last update date Nov 22, 2005
Contact name Ellen Sterrenburg
E-mail(s) [email protected]
Phone +31 71 527 6611
Organization name Leiden University Medical Center
Department Center for Human and Clinical Genetics
Lab Center for Human and Clinical Genetics
Street address Wassenaarseweg 72
City Leiden
ZIP/Postal code 2333 AL
Country Netherlands
 
Platform ID GPL783
Series (1)
GSE908 KM109_Human oligo batch I

Data table header descriptions
ID_REF
VALUE same as UNF_VALUE but with flagged values removed
P-value P-value of the difference (Rosetta Resolver)
Dia. Diameter of the spot
F1 Median Intensity target sample t=0
F1 Mean Mean signal intensity target sample t0
F1 SD Standard deviation of the intensity
B1 Median Median background of target sample
B1 Mean Mean background of target sample
B1 SD standard deviation of the background
% > B1+1SD Percentage of pixels that have a higher intensity than the background plus 1 SD
% > B1+2SD Percentage of pixels that is higher than the backgound plus 2 SD
F1 % Sat. Percentage saturated pixels
F2 Median Intensity target sample t=0
F2 Mean Mean signal intensity target sample t0
F2 SD Standard deviation of the intensity
B2 Median Background of reference sample
B2 Mean Mean background
B2 SD Standard deviation of the background
% > B2+1SD Percentage of pixels that have a higher signal than the background plus 1 SD
% > B2+2SD Percentage of pixels that have a higher signal than the background plus 2 SD
F2 % Sat. Percentage saturated pixels
Ratio of Medians Ratio of median intensities
Ratio of Means Ratio of mean intensities
Median of Ratios Median of ratios
Mean of Ratios Mean of ratios
Ratios SD Standard deviation
Rgn Ratio Regression ratio is determined by computing a linear regression between the population of pixels represented by wavelength 1 and wavelength 2
Rgn R� Coefficient of determination provides a measure of the level of accuracy of the fit of the linear regression curve
F Pixels Number of pixels in the foreground
B Pixels Number of pixels in the background
Sum of Medians Sum of medians
Sum of Means Sum of means
Log Ratio Log ratio
F1 Median - B1 Median intensity of channel 1 minus the local background
F2 Median - B2 Median intensity of channel 2 minus the local background
F1 Mean - B1 Median intensity of target minus the local background
F2 Mean - B2 Median intensity of the reference sample minus the local background
Flags Negative number means the spot is bad or not found
UNF_VALUE normalized log10 ratio of channel 1 divided by channel two (ratio profiles, Rosetta Resolver)

Data table
ID_REF VALUE P-value Dia. F1 Median F1 Mean F1 SD B1 Median B1 Mean B1 SD % > B1+1SD % > B1+2SD F1 % Sat. F2 Median F2 Mean F2 SD B2 Median B2 Mean B2 SD % > B2+1SD % > B2+2SD F2 % 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 F1 Median - B1 F2 Median - B2 F1 Mean - B1 F2 Mean - B2 Flags UNF_VALUE
1 -0.10313 0.37701 190 325 342 72 265 269 49 56 30 0 392 401 38 323 324 25 96 71 0 0.87 0.987 0.899 0.812 2.177 1.335 0.494 256 1748 129 155 -0.202 60 69 77 78 0 -0.10313
2 -0.10505 0.59402 120 321 327 44 264 268 46 60 28 0 400 396 44 328 329 30 82 60 0 0.792 0.926 0.942 0.848 2.208 1.162 0.489 120 778 129 131 -0.337 57 72 63 68 0 -0.10505
3 -0.06825 0.49489 180 359 364 71 270 274 54 71 33 0 430 429 28 342 342 29 98 82 0 1.011 1.08 1.02 0.944 1.877 1.585 0.484 256 1541 177 181 0.016 89 88 94 87 0 -0.06825
4 1 200 352 360 58 280 281 52 66 24 0 421 420 36 339 338 30 90 74 0 0.878 0.988 0.918 0.876 2.088 1.788 0.358 316 1779 154 161 -0.188 72 82 80 81 -50 -0.05056
5 -0.0739 0.45993 200 735 798 223 292 293 40 100 100 0 669 710 143 345 346 42 100 99 0 1.367 1.386 1.337 1.359 1.287 1.427 0.887 316 1658 767 871 0.451 443 324 506 365 0 -0.0739
6 -0.27538 0.00589 200 743 766 183 309 314 62 100 100 0 795 819 185 345 348 40 100 99 0 0.964 0.964 0.961 0.962 1.303 0.972 0.865 316 1773 884 931 -0.052 434 450 457 474 0 -0.27538
7 1 200 324 329 39 325 341 70 2 0 0 362 363 22 353 363 44 5 0 0 -0.111 0.4 1.211 1.248 3.592 4.146 0.115 316 1840 8 14 Error -1 9 4 10 -75 0.16004
8 1 200 332 339 54 365 820 4329 0 0 0 365 366 39 384 783 4352 0 0 0 1.737 1.444 1.452 1.308 2.866 2.095 0.613 316 1665 -52 -44 0.796 -33 -19 -26 -18 -75 0.16004
9 1 200 735 783 797 559 888 4309 0 0 0 619 651 330 493 831 4334 0 0 0 1.397 1.418 1.357 1.259 1.809 1.07 0.8 316 1677 302 382 0.482 176 126 224 158 -50
10 1 200 481 529 154 554 492 205 6 1 0 492 518 90 497 456 122 19 0 0 14.6 -1.19 1.865 1.896 2.513 2.379 0.523 316 1579 -78 -4 3.868 -73 -5 -25 21 -50 -0.1119
11 -0.07334 0.46329 240 833 878 218 623 560 250 43 16 0 708 723 139 527 492 146 61 26 0 1.16 1.301 1.327 1.208 1.845 1.593 0.916 460 1637 391 451 0.214 210 181 255 196 0 -0.07334
12 -0.06813 0.49569 240 1022 1045 275 542 524 269 89 40 0 816 816 186 457 470 154 89 70 0 1.337 1.401 1.376 1.375 1.406 1.581 0.943 460 1763 839 862 0.419 480 359 503 359 0 -0.06813
13 -0.20773 0.25205 200 399 403 74 267 350 181 20 0 0 442 442 45 323 364 106 58 2 0 1.109 1.143 1.115 1.117 1.623 1.753 0.53 316 1633 251 255 0.15 132 119 136 119 0 -0.20773
14 1 200 315 328 100 247 251 49 73 19 0 407 407 28 303 306 37 100 85 0 0.654 0.779 0.667 0.65 1.857 1.624 0.316 316 1645 172 185 -0.613 68 104 81 104 -50 -0.17851
15 -0.02296 0.81843 230 486 490 50 237 266 125 99 48 0 480 478 27 298 321 107 99 9 0 1.368 1.406 1.396 1.393 1.225 1.449 0.804 392 2005 431 433 0.452 249 182 253 180 0 -0.02296
16 0.18282 0.06752 220 1707 1608 290 240 250 78 100 100 0 825 787 121 304 307 32 98 98 0 2.816 2.832 2.77 2.911 1.369 2.815 0.942 392 1771 1988 1851 1.494 1467 521 1368 483 0 0.18282
17 -0.06135 0.70824 180 331 338 99 239 249 83 57 5 0 410 404 45 313 322 113 34 0 0 0.948 1.088 0.991 1.024 1.728 1.493 0.338 256 1396 189 190 -0.076 92 97 99 91 0 -0.06135
18 1 200 312 313 37 240 249 86 31 0 0 411 412 30 323 330 103 24 0 0 0.818 0.82 0.814 0.759 1.749 0.555 0.271 316 1679 160 162 -0.29 72 88 73 89 -50 -0.12406
19 -0.22494 0.02449 200 701 709 174 240 245 53 100 100 0 783 765 91 322 323 31 100 99 0 1 1.059 1.019 1.047 1.284 1.131 0.813 316 1488 922 912 0 461 461 469 443 0 -0.22494
20 -0.08709 0.38381 220 441 447 46 261 265 51 100 98 0 479 481 30 330 329 31 100 100 0 1.208 1.232 1.219 1.217 1.312 1.272 0.804 392 1557 329 337 0.273 180 149 186 151 0 -0.08709

Total number of rows: 10800

Table truncated, full table size 1822 Kbytes.




Supplementary data files not provided
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