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Sample GSM13772 Query DataSets for GSM13772
Status Public on Feb 12, 2004
Title KM109 t=0(1) t=14(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=14
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, t=0) and fourteen days after fusion induction (channel 2, t=14)
 
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 1 200 880 931 161 882 891 126 24 12 0 392 382 51 311 314 36 73 57 0 -0.025 0.69 2.07 1.75 3.382 6.329 0.133 316 1960 79 120 Error -2 81 49 71 -50 -0.09875
2 1 200 826 848 119 845 868 157 10 2 0 351 347 50 294 300 40 57 34 0 -0.333 0.057 2.046 1.763 4.29 10.205 0.062 316 1710 38 56 Error -19 57 3 53 -50 -0.21099
3 1 200 783 808 143 865 1146 3121 0 0 0 374 366 49 310 520 3003 0 0 0 -1.281 -1.018 2.033 1.609 3.577 1.029 0.868 316 1710 -18 -1 Error -82 64 -57 56 -50 1.91464
4 1 200 751 785 151 820 1076 3092 0 0 0 352 349 42 298 499 2975 0 0 0 -1.278 -0.686 2 2.137 3.186 1.002 0.855 316 1744 -15 16 Error -69 54 -35 51 -50 -2
5 -0.24737 0.01337 190 969 1027 251 798 804 99 59 47 0 535 574 137 288 289 23 100 100 0 0.692 0.801 0.857 0.641 2.558 1.424 0.651 256 1596 418 515 -0.531 171 247 229 286 0 -0.24737
6 -0.38262 0.00013 190 974 984 160 760 766 89 75 53 0 607 655 141 274 277 45 100 100 0 0.643 0.588 0.585 0.461 2.178 0.794 0.607 256 1573 547 605 -0.638 214 333 224 381 0 -0.38262
7 1 200 664 684 83 718 723 80 10 3 0 319 320 26 268 269 21 88 64 0 -1.059 -0.654 1.308 1.158 3.265 0.045 0.01 316 1733 -3 18 Error -54 51 -34 52 -75 -0.5512
8 1 200 700 711 85 722 729 88 13 2 0 315 315 21 275 278 29 74 12 0 -0.55 -0.275 1.625 1.355 3.416 36.282 0.006 316 1762 18 29 Error -22 40 -11 40 -75 -0.5512
9 1 200 752 770 99 727 735 108 25 7 0 373 369 29 278 281 28 96 90 0 0.263 0.473 1.062 0.845 3.193 3.43 0.21 316 1746 120 134 -1.926 25 95 43 91 -50 -0.57801
10 1 200 699 712 77 696 708 96 16 1 0 371 369 22 278 279 22 99 96 0 0.032 0.176 0.623 0.522 3.584 4.235 0.065 316 1730 96 107 -4.954 3 93 16 91 -50 -1.09644
11 1 200 689 699 80 703 700 71 15 6 0 368 368 24 283 285 21 99 96 0 -0.165 -0.047 0.651 0.449 3.832 10.06 0.016 316 1730 71 81 Error -14 85 -4 85 -50 -1.2519
12 1 200 759 761 70 686 706 118 20 1 0 402 401 24 290 295 38 99 92 0 0.652 0.676 0.717 0.629 2.091 2.129 0.179 316 1730 185 186 -0.618 73 112 75 111 -50 -0.50328
13 1 200 645 652 61 626 649 101 11 0 0 367 368 25 289 290 29 98 78 0 0.244 0.329 0.648 0.481 2.92 12.264 0.014 316 1730 97 105 -2.037 19 78 26 79 -50 -1.06276
14 1 200 643 662 88 574 576 69 49 24 0 364 364 24 275 278 25 98 96 0 0.775 0.989 0.87 0.745 2.683 2.459 0.365 316 1730 158 177 -0.367 69 89 88 89 -50 -0.23813
15 1 200 575 587 64 547 568 106 12 1 0 355 356 22 276 302 100 16 0 0 0.354 0.5 0.56 0.488 2.929 1.584 0.465 316 1944 107 120 -1.496 28 79 40 80 -50 -0.54069
16 0.02637 0.79202 210 1292 1303 149 930 948 416 37 0 0 508 504 45 325 329 52 100 93 0 1.978 2.084 2.034 1.971 1.697 3.049 0.577 316 1738 545 552 0.984 362 183 373 179 0 0.02637
17 1 200 1214 1193 167 911 934 443 17 0 0 511 484 88 307 310 49 88 77 0 1.485 1.593 1.527 1.484 1.952 2.254 0.633 316 1530 507 459 0.571 303 204 282 177 -50 -0.10953
18 1 200 928 949 122 909 1026 1907 0 0 0 400 395 41 319 372 1000 0 0 0 0.235 0.526 1.571 1.226 2.957 16.569 0.017 316 1576 100 116 -2.092 19 81 40 76 -50 -2
19 1 200 968 991 216 917 1238 3236 0 0 0 426 424 79 333 593 3152 0 0 0 0.548 0.813 1.936 1.828 3.169 1.974 0.461 316 1549 144 165 -0.867 51 93 74 91 -50
20 1 200 1030 1049 115 851 916 246 25 2 0 407 407 33 310 354 150 2 0 0 1.845 2.041 1.917 1.834 1.938 3.41 0.471 316 1601 276 295 0.884 179 97 198 97 -50 0.16175

Total number of rows: 10800

Table truncated, full table size 1782 Kbytes.




Supplementary data files not provided

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