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Sample GSM13762 Query DataSets for GSM13762
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=14(2) batch I
Sample type RNA
 
Channel 1
Source name KM109 t=0
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name KM109 t=14
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 1, t=0) and fourteen days after fusion initiation (channel 2, t=14)
 
Submission date Dec 16, 2003
Last update date Nov 22, 2005
Contact name Ellen Sterrenburg
E-mail(s) [email protected]
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 R� 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 R� 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 1 200 439 441 41 418 425 55 17 3 0 374 371 36 333 336 47 43 4 0 0.512 0.605 0.743 0.774 3.125 1.69 0.184 316 1788 62 61 -0.965 21 41 23 38 -50 0.06153
2 1 200 459 461 48 420 430 67 23 3 0 376 377 30 346 351 31 47 12 0 1.3 1.323 1.397 1.28 2.933 3.292 0.4 316 1565 69 72 0.379 39 30 41 31 -50 0.56521
3 -0.2561 0.5081 170 460 467 90 421 432 93 22 3 0 407 410 36 343 354 186 0 0 0 0.609 0.687 0.958 0.845 2.968 2.876 0.193 208 1345 103 113 -0.715 39 64 46 67 0 -0.2561
4 1 200 419 422 36 400 408 72 6 0 0 374 370 32 330 339 155 0 0 0 0.432 0.55 0.698 0.671 3.433 2.198 0.119 316 1942 63 62 -1.212 19 44 22 40 -50 0.14167
5 -0.04842 0.62825 180 671 715 194 400 406 55 96 89 0 534 563 113 335 338 30 99 99 0 1.362 1.382 1.323 1.275 1.741 1.536 0.82 256 1547 470 543 0.446 271 199 315 228 0 -0.04842
6 -0.28321 0.00462 180 685 698 144 421 430 61 96 85 0 622 646 139 333 337 29 100 99 0 0.913 0.885 0.807 0.838 1.581 0.924 0.712 256 1457 553 590 -0.131 264 289 277 313 0 -0.28321
7 1 200 431 439 52 429 440 65 11 2 0 354 356 27 331 333 28 43 10 0 0.087 0.4 1.222 1.145 3.825 4.305 0.15 316 1740 25 35 -3.524 2 23 10 25 -75 0.25014
8 1 200 419 427 59 425 430 54 10 2 0 343 346 24 330 334 33 17 2 0 -0.462 0.125 1.911 1.711 3.864 5.464 0.072 316 1828 7 18 Error -6 13 2 16 -75 0.25014
9 -0.50069 0.73095 190 594 725 954 402 408 64 99 89 0 506 907 3961 327 331 29 100 100 0 1.073 0.557 1.064 1.017 1.546 0.206 0.649 256 1551 371 903 0.101 192 179 323 580 0 -0.50069
10 1 200 434 745 1941 398 432 222 9 6 0 377 426 346 322 330 55 49 14 0 0.655 3.337 0.888 0.856 3.016 6.538 0.661 316 1769 91 451 -0.611 36 55 347 104 -50 0.32729
11 -0.08285 0.82201 200 575 608 503 401 457 435 1 0 0 454 463 206 325 336 70 85 40 0 1.349 1.5 1.339 1.318 1.777 13.233 0.331 316 1697 303 345 0.432 174 129 207 138 0 -0.08285
12 -0.13265 0.18466 210 778 785 76 385 404 155 100 88 0 641 637 46 324 331 39 99 99 0 1.24 1.278 1.245 1.275 1.252 1.266 0.904 316 1928 710 713 0.31 393 317 400 313 0 -0.13265
13 0.18263 0.8998 130 419 492 810 393 400 45 23 5 0 367 374 48 321 330 40 61 18 0 0.565 1.868 0.741 0.681 3.303 28.444 0.087 120 922 72 152 -0.823 26 46 99 53 0 0.18263
14 -1.27971 0.40848 100 393 407 55 411 434 160 2 0 0 398 403 23 357 367 93 2 0 0 -0.439 -0.087 0.636 0.621 2.61 2.24 0.562 80 560 23 42 Error -18 41 -4 46 0 -1.27971
15 -0.05077 0.61169 200 538 552 106 361 388 116 89 20 0 474 474 40 329 347 86 95 21 0 1.221 1.317 1.239 1.267 1.385 1.864 0.557 316 2095 322 336 0.288 177 145 191 145 0 -0.05077
16 0.12811 0.20018 180 1176 1090 257 433 443 65 100 98 0 668 635 95 353 357 39 100 99 0 2.359 2.33 2.393 2.248 1.366 2.477 0.877 256 1258 1058 939 1.238 743 315 657 282 0 0.12811
17 -0.10099 0.60352 270 443 468 109 413 426 65 26 15 0 392 395 41 348 352 33 61 28 0 0.682 1.17 1.262 1.177 3.555 4.453 0.157 540 1506 74 102 -0.553 30 44 55 47 0 -0.10099
18 1 200 427 426 31 407 417 82 2 0 0 382 379 32 335 345 172 0 0 0 0.426 0.432 0.576 0.573 2.834 0.362 0.709 316 1633 67 63 -1.233 20 47 19 44 -50 0.03287
19 -0.38346 0.00016 190 649 668 260 401 407 76 98 85 0 734 718 133 330 339 174 96 68 0 0.614 0.688 0.616 0.644 1.526 0.979 0.506 256 1526 652 655 -0.704 248 404 267 388 0 -0.38346
20 0.01151 0.90837 180 539 550 79 407 426 82 82 31 0 456 458 29 350 369 59 95 34 0 1.245 1.324 1.319 1.185 1.871 1.992 0.393 256 1353 238 251 0.316 132 106 143 108 0 0.01151

Total number of rows: 10800

Table truncated, full table size 1781 Kbytes.




Supplementary data files not provided

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