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Sample GSM13766 Query DataSets for GSM13766
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=1(2) batch II
Sample type RNA
 
Channel 1
Source name KM109 t=0
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name KM109 t=1
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 1, t=0) and one day after fusion induction (channel 2, t=1).
 
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 -0.21356 0.18704 160 171 173 20 145 146 14 71 46 0 286 292 33 226 227 17 98 85 0 0.433 0.424 0.417 0.382 2.08 0.435 0.501 208 1330 86 94 -1.206 26 60 28 66 0 -0.21356
2 -0.25386 0.06394 150 175 178 24 143 143 12 82 66 0 286 292 34 219 221 15 98 89 0 0.478 0.479 0.492 0.444 2.208 0.53 0.572 156 1153 99 108 -1.066 32 67 35 73 0 -0.25386
3 -0.16469 0.10375 180 187 192 26 146 147 12 90 78 0 300 301 29 222 223 17 99 94 0 0.526 0.582 0.551 0.525 1.678 0.574 0.638 256 1564 119 125 -0.928 41 78 46 79 0 -0.16469
4 -0.30803 0.00673 160 169 170 17 146 146 12 72 45 0 282 286 25 224 225 17 98 89 0 0.397 0.387 0.403 0.348 2.019 0.439 0.462 208 1338 81 86 -1.334 23 58 24 62 0 -0.30803
5 0.0723 0.46971 170 409 451 158 143 144 12 100 100 0 398 429 98 219 219 17 100 100 0 1.486 1.467 1.435 1.429 1.303 1.52 0.881 208 1433 445 518 0.571 266 179 308 210 0 0.0723
6 0.13108 0.18992 170 447 489 163 142 142 12 100 100 0 421 435 88 216 217 17 100 100 0 1.488 1.584 1.517 1.537 1.344 1.684 0.854 208 1360 510 566 0.573 305 205 347 219 0 0.13108
7 1 200 152 154 13 144 144 13 35 8 0 252 254 20 228 235 32 28 2 0 0.333 0.385 0.5 0.516 2.826 0.261 0.125 316 1795 32 36 -1.585 8 24 10 26 -75 0.21403
8 1 200 152 153 13 143 144 12 40 11 0 245 248 23 224 227 22 47 10 0 0.429 0.417 0.528 0.528 2.626 0.334 0.144 316 1762 30 34 -1.222 9 21 10 24 -75 0.21403
9 -0.09024 0.36685 210 264 264 28 146 146 13 100 100 0 354 355 18 224 226 18 100 100 0 0.908 0.901 0.894 0.884 1.296 0.924 0.837 316 1648 248 249 -0.14 118 130 118 131 0 -0.09024
10 -0.11431 0.25299 220 250 245 35 147 147 12 96 95 0 349 344 33 225 226 16 99 96 0 0.831 0.824 0.824 0.783 1.628 0.845 0.822 392 1726 227 217 -0.268 103 124 98 119 0 -0.11431
11 -0.19659 0.04931 210 232 232 26 145 146 12 100 99 0 342 346 28 220 220 17 100 100 0 0.713 0.69 0.676 0.668 1.406 0.676 0.781 316 1700 209 213 -0.488 87 122 87 126 0 -0.19659
12 -0.11537 0.24862 220 259 256 35 146 147 14 97 96 0 353 350 26 220 222 19 100 98 0 0.85 0.846 0.84 0.795 1.53 0.88 0.797 392 1752 246 240 -0.235 113 133 110 130 0 -0.11537
13 -0.11774 0.23903 210 241 241 28 150 153 46 92 47 0 344 342 24 230 233 34 100 93 0 0.798 0.813 0.813 0.783 1.375 0.807 0.787 316 1674 205 203 -0.325 91 114 91 112 0 -0.11774
14 -0.10996 0.27153 220 250 250 27 153 154 16 98 98 0 351 349 22 232 234 22 99 98 0 0.815 0.829 0.806 0.798 1.418 0.798 0.796 392 1734 216 214 -0.295 97 119 97 117 0 -0.10996
15 -0.26828 0.0073 220 243 242 29 162 183 96 28 0 0 357 355 24 234 245 53 98 77 0 0.659 0.661 0.648 0.629 1.486 0.693 0.751 392 1949 204 201 -0.603 81 123 80 121 0 -0.26828
16 -0.15885 0.11217 220 291 285 45 141 142 12 99 99 0 399 391 38 220 222 17 100 100 0 0.838 0.842 0.845 0.815 1.34 0.874 0.884 392 1805 329 315 -0.255 150 179 144 171 0 -0.15885
17 -0.1029 0.30349 210 346 329 68 142 142 12 100 99 0 419 403 52 218 219 16 100 100 0 1.015 1.011 0.998 0.971 1.33 1.046 0.887 316 1568 405 372 0.021 204 201 187 185 0 -0.1029
18 -0.26393 0.00831 210 195 195 18 142 143 12 99 94 0 317 317 20 216 217 17 100 99 0 0.525 0.525 0.526 0.503 1.496 0.516 0.709 316 1489 154 154 -0.93 53 101 53 101 0 -0.26393
19 -0.15719 0.11598 210 244 244 26 143 144 12 100 100 0 350 350 25 217 219 18 100 100 0 0.759 0.759 0.757 0.744 1.301 0.764 0.838 316 1541 234 234 -0.397 101 133 101 133 0 -0.15719
20 -0.26438 0.0082 220 207 207 21 141 142 12 98 97 0 333 331 22 213 214 18 100 99 0 0.55 0.559 0.55 0.536 1.44 0.552 0.754 392 1543 186 184 -0.862 66 120 66 118 0 -0.26438

Total number of rows: 10800

Table truncated, full table size 1808 Kbytes.




Supplementary data files not provided

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