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Sample GSM13761 Query DataSets for GSM13761
Status Public on Feb 12, 2004
Title KM109 t=6(1) t=0(2) batch I
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 I. Healthy human primary myoblasts (KM109) just before fusion (channel 2, t=0) and six days after fusion initiation (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 GPL783
Series (1)
GSE908 KM109_Human oligo batch I

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 -0.27127 0.16024 170 202 207 24 182 187 51 13 0 0 338 339 30 278 288 50 62 9 0 0.333 0.41 0.446 0.394 2.137 0.544 0.34 208 1496 80 86 -1.585 20 60 25 61 0 -0.27127
2 -0.23022 0.16726 140 222 226 29 186 187 19 80 46 0 340 343 33 278 283 28 90 58 0 0.581 0.615 0.608 0.571 2.008 0.584 0.4 156 1076 98 105 -0.784 36 62 40 65 0 -0.23022
3 -0.27928 0.01252 170 228 230 26 186 187 20 79 54 0 365 364 29 285 293 36 90 58 0 0.525 0.557 0.561 0.485 2.293 0.506 0.415 208 1512 122 123 -0.93 42 80 44 79 0 -0.27928
4 -0.50682 0.00093 170 234 236 30 190 192 22 84 49 0 409 421 60 297 309 49 93 62 0 0.393 0.371 0.388 0.356 1.958 0.347 0.503 208 1398 156 170 -1.348 44 112 46 124 0 -0.50682
5 0.06628 0.50748 180 354 411 147 185 186 22 96 95 0 372 388 74 279 287 38 85 56 0 1.817 2.073 2.023 2.085 1.746 2.077 0.74 256 1550 262 335 0.862 169 93 226 109 0 0.06628
6 0.3866 0.00011 180 856 958 483 182 184 18 99 98 0 397 416 94 271 277 31 92 74 0 5.349 5.352 5.455 5.323 1.569 5.539 0.833 256 1557 800 921 2.419 674 126 776 145 0 0.3866
7 1 200 196 198 18 189 190 41 5 0 0 294 295 24 269 271 24 50 12 0 0.28 0.346 0.576 0.516 3.077 0.463 0.134 316 1770 32 35 -1.837 7 25 9 26 -75 0.4094
8 1 200 205 206 20 194 197 63 0 0 0 313 312 23 274 280 33 59 7 0 0.282 0.316 0.482 0.429 2.716 0.371 0.229 316 1821 50 50 -1.826 11 39 12 38 -75 0.4094
9 -0.17377 0.08226 190 354 353 49 189 190 22 98 98 0 418 419 32 277 281 27 99 99 0 1.17 1.155 1.15 1.092 1.594 1.196 0.809 256 1615 306 306 0.227 165 141 164 142 0 -0.17377
10 -0.34121 0.00064 170 230 231 21 186 187 18 90 62 0 360 361 21 278 280 21 99 99 0 0.537 0.542 0.516 0.488 1.905 0.554 0.415 208 1376 126 128 -0.898 44 82 45 83 0 -0.34121
11 -0.25993 0.00934 170 254 257 31 184 187 41 87 35 0 360 363 27 269 271 46 95 48 0 0.769 0.777 0.767 0.737 1.541 0.871 0.567 208 1415 161 167 -0.379 70 91 73 94 0 -0.25993
12 -0.03311 0.7406 190 689 699 75 192 194 38 100 100 0 508 507 31 272 277 46 100 100 0 2.106 2.157 2.131 2.152 1.211 2.225 0.88 256 1718 733 742 1.074 497 236 507 235 0 -0.03311
13 -0.29191 0.00838 170 240 244 27 194 195 20 87 60 0 341 344 34 264 266 25 94 80 0 0.597 0.625 0.595 0.599 1.855 0.607 0.538 208 1409 123 130 -0.743 46 77 50 80 0 -0.29191
14 -0.24552 0.01408 190 260 263 28 197 198 22 96 78 0 354 355 25 268 270 27 99 93 0 0.733 0.759 0.739 0.72 1.63 0.738 0.509 256 1723 149 153 -0.449 63 86 66 87 0 -0.24552
15 -0.04438 0.65719 190 351 354 40 201 219 104 90 8 0 383 385 23 281 290 47 100 63 0 1.471 1.471 1.511 1.468 1.341 1.498 0.738 256 1782 252 257 0.556 150 102 153 104 0 -0.04438
16 -0.23219 0.02024 180 896 874 173 180 183 31 100 100 0 756 729 109 277 283 54 99 98 0 1.495 1.535 1.523 1.552 1.263 1.561 0.944 256 1527 1195 1146 0.58 716 479 694 452 0 -0.23219
17 -0.31231 0.00179 180 242 245 41 182 185 31 83 46 0 375 377 31 276 285 59 92 23 0 0.606 0.624 0.581 0.568 1.826 0.41 0.298 256 1566 159 164 -0.722 60 99 63 101 0 -0.31231
18 -0.2874 0.01935 140 218 218 22 179 181 19 82 51 0 347 348 25 275 281 33 96 60 0 0.542 0.534 0.514 0.514 1.872 0.555 0.474 156 1071 111 112 -0.885 39 72 39 73 0 -0.2874
19 0.23048 0.02118 170 740 724 107 182 185 22 100 100 0 437 436 43 276 292 54 100 86 0 3.466 3.388 3.487 3.451 1.288 3.552 0.602 208 1319 719 702 1.793 558 161 542 160 0 0.23048
20 -0.18878 0.05905 170 246 249 26 176 179 26 97 76 0 347 349 22 266 269 29 99 87 0 0.864 0.88 0.87 0.849 1.533 0.86 0.643 208 1383 151 156 -0.211 70 81 73 83 0 -0.18878

Total number of rows: 10800

Table truncated, full table size 1810 Kbytes.




Supplementary data files not provided
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