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Sample GSM13754 Query DataSets for GSM13754
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=0(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=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 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 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 1 200 279 290 63 246 288 517 0 0 0 362 367 41 321 440 1869 0 0 0 0.805 0.957 0.868 0.864 2.601 16.466 0.08 316 1962 74 90 -0.313 33 41 44 46 -50 0.16344
2 1 200 311 312 43 285 293 99 4 0 0 387 385 47 352 353 40 44 18 0 0.743 0.818 0.815 0.811 2.505 1.531 0.51 316 1838 61 60 -0.429 26 35 27 33 -50 0.25748
3 -0.11714 0.92054 100 359 385 133 332 340 62 22 7 0 421 447 197 382 387 31 61 28 0 0.692 0.815 0.878 0.817 3.199 0.401 0.087 80 557 66 118 -0.531 27 39 53 65 0 -0.11714
4 -0.09969 0.70781 170 391 416 143 333 349 243 3 2 0 440 444 65 371 374 44 74 25 0 0.841 1.137 0.895 0.932 2.416 7.037 0.289 208 1484 127 156 -0.251 58 69 83 73 0 -0.09969
5 0.07794 0.43574 180 738 857 1435 331 338 98 97 94 0 570 578 162 361 362 32 100 99 0 1.947 2.424 1.941 1.944 1.514 11.117 0.28 256 1542 616 743 0.962 407 209 526 217 0 0.07794
6 0.00236 0.98118 180 605 607 147 322 328 60 96 86 0 502 507 69 350 349 23 98 96 0 1.862 1.815 1.805 1.759 1.522 2.214 0.713 256 1516 435 442 0.897 283 152 285 157 0 0.00236
7 1 200 308 318 68 300 307 85 5 2 0 353 353 25 338 336 31 20 2 0 0.533 1.2 1.063 1.143 4.045 21.769 0.085 316 1807 23 33 -0.907 8 15 18 15 -75 0.12027
8 1 200 288 350 666 278 289 99 5 1 0 345 355 82 328 330 40 14 2 0 0.588 2.667 1.1 1.183 3.543 9.303 0.551 316 1759 27 99 -0.766 10 17 72 27 -75 0.12027
9 -0.0971 0.33154 190 490 497 124 267 282 187 69 1 0 475 476 29 325 332 134 71 0 0 1.487 1.523 1.485 1.466 1.367 2.028 0.643 256 1705 373 381 0.572 223 150 230 151 0 -0.0971
10 -0.05006 0.89857 130 312 334 152 268 291 254 2 1 0 386 386 27 324 333 57 58 1 0 0.71 1.065 0.869 0.793 2.263 4.286 0.126 120 874 106 128 -0.495 44 62 66 62 0 -0.05006
11 0.00486 0.99205 190 399 474 823 271 296 655 1 1 0 416 423 69 316 318 49 92 52 0 1.28 1.897 1.207 1.324 1.746 10.506 0.347 256 1666 228 310 0.356 128 100 203 107 0 0.00486
12 -0.06824 0.49499 200 753 755 178 276 283 62 99 99 0 561 561 56 313 315 28 100 99 0 1.923 1.931 1.915 1.905 1.304 2.286 0.757 316 1818 725 727 0.944 477 248 479 248 0 -0.06824
13 -0.18313 0.0943 190 355 371 91 291 301 84 31 5 0 408 407 30 322 322 27 98 85 0 0.744 0.941 0.789 0.755 2.106 2.382 0.282 256 1564 150 165 -0.426 64 86 80 85 0 -0.18313
14 1 200 376 385 101 317 329 152 3 1 0 410 408 34 337 337 39 83 43 0 0.808 0.958 0.837 0.794 2.54 67.232 0.03 316 1782 132 139 -0.307 59 73 68 71 -50 -0.13663
15 -0.11078 0.46174 210 527 546 309 340 369 286 2 0 0 493 494 35 356 364 50 100 90 0 1.365 1.493 1.377 1.371 1.386 6.082 0.26 316 1990 324 344 0.449 187 137 206 138 0 -0.11078
16 -0.04126 0.6799 180 1296 1250 215 258 264 93 100 100 0 779 760 94 329 330 63 100 100 0 2.307 2.302 2.253 2.305 1.181 2.362 0.84 256 1511 1488 1423 1.206 1038 450 992 431 0 -0.04126
17 1 200 361 368 100 294 303 99 17 2 0 447 442 50 361 362 44 81 46 0 0.779 0.914 0.817 0.85 2.037 3.277 0.285 316 1636 153 155 -0.36 67 86 74 81 -50 -0.16562
18 -0.252 0.07171 170 388 394 79 330 340 192 0 0 0 466 469 30 382 384 24 100 97 0 0.69 0.736 0.676 0.621 1.964 15.522 0.1 208 1309 142 151 -0.534 58 84 64 87 0 -0.252
19 -0.06316 0.52762 180 652 666 159 341 357 253 70 4 0 569 556 55 381 381 41 100 93 0 1.654 1.857 1.779 1.82 1.434 5.027 0.366 256 1494 499 500 0.726 311 188 325 175 0 -0.06316
20 -0.21909 0.02846 170 475 475 46 343 350 76 90 28 0 492 497 35 367 368 30 100 99 0 1.056 1.015 1.011 0.991 1.447 1.529 0.464 208 1382 257 262 0.079 132 125 132 130 0 -0.21909

Total number of rows: 10800

Table truncated, full table size 1763 Kbytes.




Supplementary data files not provided
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