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Sample GSM13764 Query DataSets for GSM13764
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=0(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=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 -0.31461 0.12092 180 228 232 33 187 203 62 27 1 0 364 377 70 266 270 25 98 88 0 0.418 0.405 0.396 0.369 2.217 0.397 0.485 256 1638 139 156 -1.257 41 98 45 111 0 -0.31461
2 -0.20198 0.24025 150 234 241 52 182 184 21 78 56 0 342 349 42 256 258 20 97 92 0 0.605 0.634 0.545 0.536 1.985 0.814 0.505 156 1138 138 152 -0.726 52 86 59 93 0 -0.20198
3 -0.07741 0.56852 190 228 238 49 182 188 91 17 1 0 324 328 33 250 252 21 97 89 0 0.622 0.718 0.654 0.585 2.111 0.998 0.465 256 1644 120 134 -0.686 46 74 56 78 0 -0.07741
4 -0.21918 0.61334 180 201 219 200 184 197 210 1 0 0 299 306 53 254 258 34 74 16 0 0.378 0.673 0.488 0.422 3.063 11.848 0.202 256 1544 62 87 -1.404 17 45 35 52 0 -0.21918
5 0.02806 0.77904 180 549 616 253 185 198 196 76 46 0 468 481 116 257 260 32 99 98 0 1.725 1.924 1.843 1.833 1.403 2.131 0.846 256 1513 575 655 0.787 364 211 431 224 0 0.02806
6 0.01413 0.88761 180 778 811 253 196 204 58 100 99 0 546 564 119 262 264 25 100 100 0 2.049 2.036 2.001 2.028 1.333 2.086 0.879 256 1501 866 917 1.035 582 284 615 302 0 0.01413
7 1 200 222 243 125 207 227 235 2 0 0 296 299 25 274 314 546 0 0 0 0.682 1.44 1.091 1.018 3.46 6.533 0.13 316 1734 37 61 -0.553 15 22 36 25 -75 0.34035
8 1 200 224 228 38 211 308 1671 0 0 0 291 295 30 272 324 671 0 0 0 0.684 0.739 0.957 0.866 3.582 4.294 0.843 316 1706 32 40 -0.547 13 19 17 23 -75 0.34035
9 -0.23482 0.44421 210 474 489 93 206 296 1690 0 0 0 474 476 61 265 283 422 1 0 0 1.282 1.341 1.306 1.33 1.3 4.591 0.296 316 1662 477 494 0.359 268 209 283 211 0 -0.23482
10 -0.29485 0.00319 210 346 355 53 213 243 272 2 0 0 416 420 33 266 271 41 100 99 0 0.887 0.922 0.906 0.886 1.378 3.252 0.276 316 1742 283 296 -0.174 133 150 142 154 0 -0.29485
11 -0.26659 0.0127 210 345 363 95 230 259 347 2 0 0 411 411 27 272 277 46 100 96 0 0.827 0.957 0.83 0.84 1.595 7.923 0.33 316 1702 254 272 -0.273 115 139 133 139 0 -0.26659
12 -0.25587 0.19278 220 542 542 108 245 344 1142 0 0 0 505 505 64 277 300 245 37 0 0 1.303 1.303 1.304 1.279 1.44 5.707 0.585 392 1650 525 525 0.381 297 228 297 228 0 -0.25587
13 -0.15012 0.58999 220 503 536 478 242 337 1172 1 1 0 461 456 73 269 289 242 7 0 0 1.359 1.572 1.378 1.346 1.649 6.291 0.544 392 1660 453 481 0.443 261 192 294 187 0 -0.15012
14 -0.16917 0.0907 230 505 516 91 251 295 482 2 0 0 462 463 27 270 276 49 100 99 0 1.323 1.373 1.331 1.323 1.306 12.137 0.187 392 1667 446 458 0.404 254 192 265 193 0 -0.16917
15 -0.16886 0.09129 230 482 505 139 288 340 295 10 2 0 451 451 41 280 299 80 98 61 0 1.135 1.269 1.144 1.168 1.527 6.013 0.317 392 1856 365 388 0.182 194 171 217 171 0 -0.16886
16 -0.22639 0.02358 210 401 405 65 186 189 30 100 100 0 463 468 65 259 262 33 100 99 0 1.054 1.048 1.063 1.057 1.342 1.017 0.827 316 1705 419 428 0.076 215 204 219 209 0 -0.22639
17 -0.17397 0.08191 200 425 435 97 185 186 22 100 100 0 464 459 71 251 253 20 100 100 0 1.127 1.202 1.201 1.204 1.358 1.235 0.852 316 1541 453 458 0.172 240 213 250 208 0 -0.17397
18 -0.22788 0.15532 220 248 268 227 183 189 95 16 2 0 363 352 42 247 248 22 93 88 0 0.56 0.81 0.61 0.615 1.971 5.839 0.199 392 1515 181 190 -0.836 65 116 85 105 0 -0.22788
19 -0.16252 0.10413 210 419 418 55 184 193 107 98 64 0 442 437 43 248 250 23 99 99 0 1.211 1.238 1.217 1.246 1.384 1.991 0.566 316 1450 429 423 0.277 235 194 234 189 0 -0.16252
20 -0.19882 0.45934 220 303 341 621 187 194 64 92 38 0 400 401 75 251 252 20 99 98 0 0.779 1.027 0.8 0.774 1.559 7.301 0.32 392 1550 265 304 -0.361 116 149 154 150 0 -0.19882

Total number of rows: 10800

Table truncated, full table size 1790 Kbytes.




Supplementary data files not provided
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