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Sample GSM13765 Query DataSets for GSM13765
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=0(2) dyeswap 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=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 1 and 2).
 
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 -0.03648 0.73632 170 199 200 30 142 143 25 88 60 0 331 325 36 251 251 40 83 49 0 0.712 0.784 0.765 0.764 1.929 0.688 0.662 208 1504 137 132 -0.489 57 80 58 74 0 -0.03648
2 0.26355 0.87419 140 190 193 28 143 156 321 0 0 0 302 302 33 248 269 555 0 0 0 0.87 0.926 0.891 0.936 1.901 0.754 0.54 156 1052 101 104 -0.2 47 54 50 54 0 0.26355
3 -0.11459 0.40236 160 188 190 24 146 152 124 0 0 0 315 316 27 250 251 29 92 60 0 0.646 0.667 0.653 0.625 1.773 0.638 0.59 208 1284 107 110 -0.63 42 65 44 66 0 -0.11459
4 -0.02419 0.94224 120 178 181 38 153 157 20 58 25 0 293 297 34 253 258 27 68 35 0 0.625 0.636 0.623 0.63 2.189 0.744 0.379 120 706 65 72 -0.678 25 40 28 44 0 -0.02419
5 0.16498 0.09898 190 362 391 123 149 151 16 100 100 0 394 403 63 240 243 21 100 100 0 1.383 1.485 1.416 1.409 1.354 1.587 0.838 256 1752 367 405 0.468 213 154 242 163 0 0.16498
6 0.21514 0.03145 180 353 383 108 152 153 19 100 100 0 379 392 62 242 244 31 100 96 0 1.467 1.54 1.508 1.489 1.428 1.553 0.76 256 1521 338 381 0.553 201 137 231 150 0 0.21514
7 1 200 171 173 19 153 156 50 2 0 0 294 299 38 242 243 45 60 7 0 0.346 0.351 0.4 0.345 2.556 0.326 0.366 316 1786 70 77 -1.531 18 52 20 57 -75 0.32118
8 1 200 181 185 35 163 177 127 0 0 0 287 284 25 252 257 63 6 0 0 0.514 0.688 0.641 0.602 2.685 4.899 0.103 316 1708 53 54 -0.959 18 35 22 32 -75 0.32118
9 -0.46608 0.62843 200 303 883 3408 175 190 115 62 14 0 363 1331 5386 263 269 50 92 48 0 1.28 0.663 1.333 1.29 1.857 0.627 0.948 316 1648 228 1776 0.356 128 100 708 1068 0 -0.46608
10 0.06568 0.57377 200 260 282 95 170 185 145 15 3 0 344 347 29 251 257 39 99 76 0 0.968 1.167 0.995 1.015 1.624 6.004 0.4 316 1678 183 208 -0.047 90 93 112 96 0 0.06568
11 -0.11231 0.35003 180 227 229 26 172 186 128 1 0 0 328 328 23 248 257 50 91 16 0 0.688 0.712 0.7 0.66 1.707 0.688 0.498 256 1444 135 137 -0.541 55 80 57 80 0 -0.11231
12 0.14544 0.93387 220 298 326 334 175 261 1385 0 0 0 373 381 269 257 328 1253 0 0 0 1.06 1.218 1.097 1.085 1.781 0.923 0.647 392 1816 239 275 0.085 123 116 151 124 0 0.14544
13 0.37475 0.90841 220 281 303 296 168 256 1469 0 0 0 368 368 74 254 336 1330 0 0 0 0.991 1.184 1.012 0.995 1.661 0.769 0.707 392 1614 227 249 -0.013 113 114 135 114 0 0.37475
14 0.00145 0.98845 220 283 285 41 177 182 32 97 91 0 366 366 34 257 260 59 97 35 0 0.972 0.991 0.996 0.953 1.479 1.026 0.67 392 1718 215 217 -0.04 106 109 108 109 0 0.00145
15 0.05595 0.61073 210 290 299 57 197 215 81 60 13 0 375 370 50 276 287 56 79 37 0 0.939 1.085 1.024 1.049 1.705 1.052 0.628 316 1919 192 196 -0.09 93 99 102 94 0 0.05595
16 0.10565 0.74443 210 273 271 38 143 164 425 0 0 0 369 363 41 255 274 478 0 0 0 1.14 1.185 1.172 1.223 1.401 1.111 0.804 316 1786 244 236 0.189 130 114 128 108 0 0.10565
17 0.21084 0.65762 200 271 263 47 144 167 451 0 0 0 345 337 43 251 272 509 0 0 0 1.351 1.384 1.323 1.449 1.846 0.864 0.642 316 1582 221 205 0.434 127 94 119 86 0 0.21084
18 1 200 196 197 21 148 152 113 0 0 0 311 309 21 252 253 29 88 50 0 0.814 0.86 0.878 0.847 1.835 0.661 0.499 316 1542 107 106 -0.298 48 59 49 57 -50 0.08141
19 0.02507 0.87814 200 239 241 37 153 158 109 15 0 0 336 345 99 253 257 38 96 58 0 1.036 0.957 1.027 1.031 1.49 0.516 0.456 316 1681 169 180 0.051 86 83 88 92 0 0.02507
20 -0.01832 0.85461 210 218 219 21 155 156 18 98 93 0 328 332 28 250 255 52 90 12 0 0.808 0.78 0.8 0.784 1.478 0.419 0.47 316 1499 141 146 -0.308 63 78 64 82 0 -0.01832

Total number of rows: 10800

Table truncated, full table size 1790 Kbytes.




Supplementary data files not provided

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