NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM13767 Query DataSets for GSM13767
Status Public on Feb 12, 2004
Title KM109 t=1(1) t=0(2) batch II
Sample type RNA
 
Channel 1
Source name KM109 t=1
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 2, t=0) and one day after fusion induction (channel 1, t=1).
 
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 0.18704 100 525 4405 10219 288 928 4089 16 12 0 369 1037 2631 255 336 518 16 11 0 2.079 5.265 2.211 2.45 2.925 5.546 0.565 80 456 351 4899 1.056 237 114 4117 782 -100 -0.21356
2 0.06394 140 352 435 360 217 633 3215 0 0 0 327 338 66 217 268 385 1 0 0 1.227 1.802 1.264 1.34 1.858 7.695 0.475 156 1023 245 339 0.295 135 110 218 121 -100 -0.25386
3 0.10375 210 339 800 2792 229 481 1944 5 3 0 310 348 231 216 253 240 6 2 0 1.17 4.326 1.135 1.459 2.815 13.885 0.386 316 2067 204 703 0.227 110 94 571 132 -100 -0.16469
4 0.00673 100 341 540 968 243 491 1398 2 2 0 308 332 98 215 255 188 11 5 0 1.054 2.538 1.117 1.16 2.43 11.222 0.302 80 560 191 414 0.076 98 93 297 117 -100 -0.30803
5 0.46971 170 769 2524 7575 244 631 1811 10 8 0 415 740 1929 205 261 253 31 6 0 2.5 4.262 2.349 2.688 2.145 5.739 0.516 208 1463 735 2815 1.322 525 210 2280 535 -100 0.0723
6 0.18992 190 863 1291 1947 269 924 3104 4 1 0 442 471 279 207 327 652 4 1 0 2.528 3.871 2.667 2.85 1.859 5.315 0.687 256 1596 829 1286 1.338 594 235 1022 264 -100 0.13108
7 1 200 452 1500 3894 292 1176 4166 6 3 0 289 450 771 211 367 898 3 2 0 2.051 5.054 2.653 2.665 3.958 6.508 0.589 316 1870 238 1447 1.037 160 78 1208 239 -100 0.21403
8 1 200 308 889 2158 300 1172 4380 4 2 0 256 341 284 215 366 1020 2 0 0 0.195 4.675 2.169 1.882 4.267 6.908 0.531 316 1874 49 715 -2.358 8 41 589 126 -100 0.21403
9 0.36685 200 388 4837 14412 234 653 2844 12 9 0 330 1938 6382 198 290 842 11 9 0 1.167 2.645 1.577 1.75 3.02 2.597 0.793 316 1885 286 6343 0.222 154 132 4603 1740 -100 -0.09024
10 0.25299 170 312 807 3465 203 403 1500 2 1 0 306 374 570 182 225 503 2 1 0 0.879 3.146 0.951 1.144 2.474 5.604 0.585 208 1359 233 796 -0.186 109 124 604 192 -100 -0.11431
11 0.04931 190 248 309 342 176 272 630 3 1 0 274 271 61 177 192 114 30 1 0 0.742 1.415 0.811 0.887 2.381 6.688 0.417 256 1675 169 227 -0.43 72 97 133 94 -100 -0.19659
12 -0.11537 0.24862 180 243 256 82 170 218 573 0 0 0 276 268 34 170 178 101 59 0 0 0.689 0.878 0.748 0.786 1.866 17.635 0.313 256 1548 179 184 -0.538 73 106 86 98 0 -0.11537
13 -0.11774 0.23903 170 254 261 45 167 178 96 39 1 0 272 272 23 166 169 25 99 97 0 0.821 0.887 0.825 0.835 1.564 1.521 0.553 208 1365 193 200 -0.285 87 106 94 106 0 -0.11774
14 -0.10996 0.27153 180 242 244 34 162 168 62 74 7 0 275 271 26 165 167 25 99 95 0 0.727 0.774 0.75 0.736 1.472 1.577 0.555 256 1568 190 188 -0.459 80 110 82 106 0 -0.10996
15 -0.26828 0.0073 180 234 238 45 161 175 70 51 3 0 263 259 34 165 173 45 92 62 0 0.745 0.819 0.789 0.779 1.634 1.387 0.454 256 1642 171 171 -0.425 73 98 77 94 0 -0.26828
16 0.11217 200 372 1577 4435 444 3945 10315 4 0 0 336 1145 3710 271 915 2619 5 4 0 -1.108 1.296 3.28 3.027 4.282 4.046 0.305 316 1822 -7 2007 Error -72 65 1133 874 -100 -0.15885
17 0.30349 210 361 514 1327 234 584 2422 0 0 0 320 312 131 216 270 492 0 0 0 1.221 2.917 1.747 1.823 2.536 6.464 0.574 316 1692 231 376 0.288 127 104 280 96 -100 -0.1029
18 0.00831 160 309 512 1423 213 349 978 2 1 0 320 349 248 205 226 184 9 1 0 0.835 2.076 0.816 0.868 2.117 7.966 0.415 208 1302 211 443 -0.261 96 115 299 144 -100 -0.26393
19 0.11598 150 286 456 1596 199 319 533 1 1 0 302 312 84 195 214 80 83 6 0 0.813 2.197 0.882 0.929 2.035 23.987 0.155 156 1169 194 374 -0.299 87 107 257 117 -100 -0.15719
20 0.0082 140 299 409 322 205 472 1632 1 0 0 298 308 48 196 232 181 9 0 0 0.922 1.821 0.989 1.051 2.612 11.217 0.627 156 1100 196 316 -0.118 94 102 204 112 -100 -0.26438

Total number of rows: 10800

Table truncated, full table size 1803 Kbytes.




Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap