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Sample GSM13773 Query DataSets for GSM13773
Status Public on Feb 12, 2004
Title KM109 t=14(1) t=0(2) batch II
Sample type RNA
 
Channel 1
Source name KM109_t=14
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name KM109 t=0
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Timecourse experiment hybridized to human oligo array part II. Healthy human primary myoblasts (KM109) just before fusion (channel 2, t=0) and fourteen days after fusion induction (channel 1, t=14).
 
Submission date Dec 16, 2003
Last update date Nov 22, 2005
Contact name Ellen Sterrenburg
E-mail(s) E.sterrenburg@lumc.nl
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 GPL784
Series (1)
GSE909 KM109_Human oligo batch II

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 Rē 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 Rē 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 0.00414 0.967 150 378 373 68 199 205 79 92 60 0 491 494 58 302 306 41 99 97 0 0.947 0.906 0.877 0.875 1.436 0.931 0.631 156 1197 368 366 -0.078 179 189 174 192 0 0.00414
2 -2 0.82976 140 382 405 117 211 486 3430 0 0 0 504 511 73 309 452 2144 0 0 0 0.877 0.96 0.897 0.903 1.452 1.082 0.726 156 1092 366 396 -0.189 171 195 194 202 0 -2
3 -0.08657 0.85591 190 427 425 92 203 270 1729 0 0 0 532 527 86 295 315 548 0 0 0 0.945 0.957 0.955 0.931 1.324 3.055 0.804 256 1702 461 454 -0.081 224 237 222 232 0 -0.08657
4 -0.01716 0.86378 180 347 350 51 208 215 55 98 72 0 469 472 45 299 304 37 100 98 0 0.818 0.821 0.81 0.785 1.463 1.009 0.589 256 1550 309 315 -0.29 139 170 142 173 0 -0.01716
5 0.04014 0.68812 180 568 577 115 228 237 94 100 95 0 633 640 96 318 321 37 100 99 0 1.079 1.084 1.057 1.088 1.331 1.191 0.77 256 1505 655 671 0.11 340 315 349 322 0 0.04014
6 0.34732 0.00082 180 672 691 166 226 248 251 90 38 0 554 552 71 312 330 258 42 0 0 1.843 1.938 1.885 1.914 1.411 1.101 0.773 256 1477 688 705 0.882 446 242 465 240 0 0.34732
7 1 200 334 343 76 232 248 81 63 20 0 432 445 91 315 329 87 70 19 0 0.872 0.854 0.858 0.862 1.601 0.958 0.601 316 1787 219 241 -0.198 102 117 111 130 -75 0.06871
8 1 200 344 337 62 256 260 60 66 26 0 444 430 63 332 336 74 72 17 0 0.786 0.827 0.879 0.852 2.003 0.903 0.639 316 1760 200 179 -0.348 88 112 81 98 -75 0.06871
9 -0.0608 0.54322 190 439 436 53 270 274 81 93 56 0 554 552 48 342 344 55 99 98 0 0.797 0.79 0.778 0.769 1.34 0.772 0.752 256 1596 381 376 -0.327 169 212 166 210 0 -0.0608
10 -0.08877 0.37471 190 421 425 39 287 299 69 96 45 0 544 548 44 353 364 64 99 96 0 0.702 0.708 0.71 0.697 1.319 0.8 0.678 256 1674 325 333 -0.511 134 191 138 195 0 -0.08877
11 -0.0043 0.96738 130 433 431 43 304 318 75 87 30 0 525 523 48 363 378 82 95 48 0 0.796 0.794 0.763 0.781 1.361 0.708 0.603 120 886 291 287 -0.329 129 162 127 160 0 -0.0043
12 1 200 283 294 56 280 280 67 16 3 0 399 401 57 345 346 75 37 4 0 0.056 0.25 0.772 0.691 3.526 0.796 0.55 316 1857 57 70 -4.17 3 54 14 56 -50 -0.2248
13 1 200 398 391 63 281 277 54 82 56 0 493 489 73 345 341 62 86 63 0 0.791 0.764 0.774 0.762 1.745 0.749 0.68 316 1710 265 254 -0.339 117 148 110 144 -50 0.00725
14 1 200 356 354 41 268 269 59 75 20 0 477 472 44 335 337 56 95 79 0 0.62 0.628 0.641 0.598 1.597 0.718 0.754 316 1736 230 223 -0.69 88 142 86 137 -50 -0.06596
15 -0.02618 0.8184 170 342 348 51 258 265 69 59 16 0 456 456 60 326 335 55 90 59 0 0.646 0.692 0.694 0.663 1.731 0.933 0.582 208 1413 214 220 -0.63 84 130 90 130 0 -0.02618
16 -0.15903 0.98045 200 288 417 1548 208 398 2697 0 0 0 455 456 74 310 403 1674 0 0 0 0.552 1.432 0.576 0.564 1.667 7.842 0.296 316 1797 225 355 -0.858 80 145 209 146 0 -0.15903
17 -2 0.77149 180 324 325 51 221 447 3090 0 0 0 464 460 67 316 434 1932 0 0 0 0.696 0.722 0.718 0.722 1.493 1.646 0.88 256 1346 251 248 -0.523 103 148 104 144 0 -2
18 -0.16197 0.82184 190 387 391 62 216 293 1810 0 0 0 501 512 62 309 334 573 0 0 0 0.891 0.862 0.868 0.841 1.331 3.304 0.885 256 1552 363 378 -0.167 171 192 175 203 0 -0.16197
19 -0.01967 0.84405 190 313 319 56 218 226 64 83 19 0 442 446 37 311 316 41 100 94 0 0.725 0.748 0.732 0.701 1.464 1.21 0.377 256 1528 226 236 -0.464 95 131 101 135 0 -0.01967
20 0.06488 0.82823 200 343 383 380 231 239 82 73 15 0 466 475 80 319 325 48 99 90 0 0.762 0.974 0.779 0.767 1.672 4.134 0.325 316 1499 259 308 -0.392 112 147 152 156 0 0.06488

Total number of rows: 10800

Table truncated, full table size 1769 Kbytes.




Supplementary data files not provided

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