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Sample GSM13771 Query DataSets for GSM13771
Status Public on Feb 12, 2004
Title KM109 t=6(1) t=0(2) batch II
Sample type RNA
 
Channel 1
Source name KM109 t=6
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 six days after fusion induction (channel 1, t=6).
 
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 -0.18886 0.18728 180 233 236 34 184 186 19 83 61 0 302 307 36 227 228 20 96 90 0 0.653 0.65 0.632 0.6 1.865 0.685 0.61 256 1601 124 132 -0.614 49 75 52 80 0 -0.18886
2 -0.19397 0.30402 170 225 228 33 181 182 20 74 53 0 319 317 40 227 229 19 95 90 0 0.478 0.522 0.509 0.458 2.088 0.587 0.599 208 1345 136 137 -1.064 44 92 47 90 0 -0.19397
3 -0.22953 0.27338 200 225 239 131 176 177 15 84 68 0 303 309 86 224 225 18 96 92 0 0.62 0.741 0.649 0.572 2.024 1.465 0.302 316 1812 128 148 -0.689 49 79 63 85 0 -0.22953
4 -0.46238 0.23098 180 203 205 22 176 189 264 0 0 0 294 296 37 219 227 220 0 0 0 0.36 0.377 0.373 0.349 2.217 1.239 0.554 256 1522 102 106 -1.474 27 75 29 77 0 -0.46238
5 0.04877 0.62576 180 620 709 315 176 183 175 94 62 0 398 437 119 213 221 219 41 5 0 2.4 2.379 2.27 2.305 1.509 2.566 0.877 256 1500 629 757 1.263 444 185 533 224 0 0.04877
6 0.31395 0.00169 170 1037 1154 485 178 181 33 100 100 0 435 452 112 219 221 18 100 100 0 3.977 4.189 4.112 4.149 1.223 4.402 0.912 208 1367 1075 1209 1.992 859 216 976 233 0 0.31395
7 1 200 192 193 19 176 178 35 12 0 0 249 251 21 218 220 27 59 8 0 0.516 0.515 0.572 0.533 2.592 0.636 0.191 316 1819 47 50 -0.954 16 31 17 33 -75 0.32331
8 1 200 197 198 17 176 178 41 12 0 0 245 246 21 214 216 35 36 1 0 0.677 0.688 0.741 0.688 2.317 1.232 0.625 316 1707 52 54 -0.562 21 31 22 32 -75 0.32331
9 -0.18164 0.0693 210 352 353 38 173 175 36 100 100 0 369 367 28 209 211 28 100 99 0 1.119 1.139 1.121 1.139 1.281 1.153 0.859 316 1634 339 338 0.162 179 160 180 158 0 -0.18164
10 -0.24329 0.01498 220 271 266 35 173 174 17 96 94 0 330 325 33 211 213 19 97 95 0 0.824 0.816 0.816 0.807 1.616 0.848 0.757 392 1731 217 207 -0.28 98 119 93 114 0 -0.24329
11 -0.43994 0.00001 220 223 224 23 177 178 20 89 59 0 327 324 30 217 220 22 98 94 0 0.418 0.439 0.429 0.424 1.788 0.446 0.549 392 1634 156 154 -1.258 46 110 47 107 0 -0.43994
12 -0.12471 0.21236 220 402 388 71 183 187 27 98 96 0 388 381 39 226 229 28 98 97 0 1.352 1.323 1.312 1.243 1.507 1.413 0.815 392 1700 381 360 0.435 219 162 205 155 0 -0.12471
13 -0.13974 0.16229 210 340 343 42 193 196 27 100 100 0 357 355 24 224 228 31 100 99 0 1.105 1.145 1.144 1.121 1.335 1.199 0.72 316 1675 280 281 0.144 147 133 150 131 0 -0.13974
14 -0.26558 0.00791 230 316 317 36 185 187 23 99 99 0 351 361 46 207 212 28 100 100 0 0.91 0.857 0.916 0.85 1.423 0.848 0.703 392 1696 275 286 -0.137 131 144 132 154 0 -0.26558
15 -0.22772 0.02277 240 304 301 49 188 225 138 26 0 0 332 321 38 209 225 59 88 55 0 0.943 1.009 0.975 0.973 1.592 1.886 0.558 460 2012 239 225 -0.085 116 123 113 112 0 -0.22772
16 -0.02968 0.76659 220 492 478 94 182 186 33 100 100 0 402 399 46 234 236 38 98 96 0 1.845 1.794 1.797 1.776 1.315 1.762 0.824 392 1759 478 461 0.884 310 168 296 165 0 -0.02968
17 -0.11649 0.24407 210 509 485 125 178 179 21 100 100 0 447 431 64 230 232 24 100 99 0 1.525 1.527 1.517 1.464 1.343 1.648 0.87 316 1490 548 508 0.609 331 217 307 201 0 -0.11649
18 -0.26861 0.00723 210 266 267 29 176 178 20 100 96 0 342 339 27 222 224 23 100 100 0 0.75 0.778 0.777 0.758 1.39 0.828 0.665 316 1467 210 208 -0.415 90 120 91 117 0 -0.26861
19 -0.15043 0.15143 210 422 410 61 175 188 271 32 0 0 400 397 36 217 226 225 7 0 0 1.35 1.306 1.311 1.284 1.263 1.334 0.567 316 1445 430 415 0.433 247 183 235 180 0 -0.15043
20 -0.20008 0.17448 220 316 319 40 176 190 274 0 0 0 357 354 29 214 223 227 0 0 0 0.979 1.021 1.007 1.019 1.387 1.071 0.805 392 1424 283 283 -0.031 140 143 143 140 0 -0.20008

Total number of rows: 10800

Table truncated, full table size 1820 Kbytes.




Supplementary data files not provided

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