NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM95426 Query DataSets for GSM95426
Status Public on Feb 25, 2006
Title OV433
Sample type RNA
 
Channel 1
Source name CRH
Organism Homo sapiens
Characteristics CRH
Extracted molecule total RNA
Label Cy3
 
Channel 2
Source name OV433
Organism Homo sapiens
Characteristics OV433
Extracted molecule total RNA
Label Cy5
 
 
Description Simple annotation: Drug_treatment, Taxol
Image: http://smd.stanford.edu/MicroArray/gifs/2002-05/28742.gif
Data processing VALUE is Log (base 2) of the ratio of the median of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm)
 
Submission date Feb 03, 2006
Last update date Sep 22, 2006
Organization Stanford Microarray Database (SMD)
E-mail(s) array@genome.stanford.edu
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL3305
Series (1)
GSE4173 Taxane-selected ovarian cancer cell lines

Data table header descriptions
ID_REF ID_REF
CH1I_MEAN Mean feature pixel intensity at wavelength 532 nm.; Type: integer; Scale: linear_scale
CH2I_MEAN Mean feature pixel intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale
CH1B_MEDIAN The median feature background intensity at wavelength 532 nm.; Type: integer; Scale: linear_scale; Channel: Cy3 Channel; Background
CH2B_MEDIAN The median feature background intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale; Channel: Cy5 channel; Background
CH1D_MEAN The mean feature pixel intensity at wavelength 532 nm with the median background subtracted.; Type: integer; Scale: linear_scale; Channel: Cy3 Channel
CH2D_MEAN .The mean feature pixel intensity at wavelength 635 nm with the median background subtracted.; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH1I_MEDIAN Median feature pixel intensity at wavelength 532 nm.; Type: integer; Scale: linear_scale
CH2I_MEDIAN Median feature pixel intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale
CH1B_MEAN The mean feature background intensity at wavelength 532 nm.; Type: integer; Scale: linear_scale; Background
CH2B_MEAN The mean feature background intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale; Background
CH1D_MEDIAN The median feature pixel intensity at wavelength 532 nm with the median background subtracted.; Type: integer; Scale: linear_scale
CH2D_MEDIAN The median feature pixel intensity at wavelength 635 nm with the median background subtracted.; Type: integer; Scale: linear_scale
CH1_PER_SAT The percentage of feature pixels at wavelength 532 nm that are saturated.; Type: integer; Scale: linear_scale
CH2_PER_SAT The percentage of feature pixels at wavelength 635 nm that are saturated.; Type: integer; Scale: linear_scale
CH1I_SD The standard deviation of the feature intensity at wavelength 532 nm.; Type: integer; Scale: linear_scale; Channel: Cy3 Channel
CH2I_SD The standard deviation of the feature pixel intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH1B_SD The standard deviation of the feature background intensity at wavelength 532 nm.; Type: float; Scale: linear_scale; Channel: Cy3 Channel; Background
CH2B_SD The standard deviation of the feature background intensity at wavelength 635 nm.; Type: integer; Scale: linear_scale; Channel: Cy5 channel; Background
PERGTBCH1I_1SD The percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength 532 nm.; Type: integer; Scale: linear_scale
PERGTBCH2I_1SD The percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength 635 nm.; Type: integer; Scale: linear_scale
PERGTBCH1I_2SD The percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength 532 nm.; Type: integer; Scale: linear_scale
PERGTBCH2I_2SD The percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength 532 nm.; Type: integer; Scale: linear_scale
SUM_MEAN The sum of the arithmetic mean intensities for each wavelength, with the median background subtracted.; Type: integer; Scale: linear_scale
SUM_MEDIAN The sum of the median intensities for each wavelength, with the median background subtracted.; Type: integer; Scale: linear_scale
RAT1_MEAN Ratio of the arithmetic mean intensities of each spot for each wavelength, with the median background subtracted. Channel 1/Channel 2 ratio, (CH1I_MEAN - CH1B_MEDIAN)/(CH2I_MEAN - CH2B_MEDIAN) or Green/Red ratio.; Type: float; Scale: linear_scale
RAT2_MEAN The ratio of the arithmetic mean intensities of each feature for each wavelength, with the median background subtracted.; Type: float; Scale: linear_scale
RAT2_MEDIAN The ratio of the median intensities of each feature for each wavelength, with the median background subtracted.; Type: float; Scale: linear_scale
PIX_RAT2_MEAN The geometric mean of the pixel-by-pixel ratios of pixel intensities, with the median background subtracted.; Type: float; Scale: linear_scale
PIX_RAT2_MEDIAN The median of pixel-by-pixel ratios of pixel intensities, with the median background subtracted.; Type: float; Scale: linear_scale
RAT2_SD The geometric standard deviation of the pixel intensity ratios.; Type: float; Scale: linear_scale
TOT_SPIX The total number of feature pixels.; Type: integer; Scale: linear_scale
TOT_BPIX The total number of background pixels.; Type: integer; Scale: linear_scale
REGR The regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.; Type: float; Scale: linear_scale
CORR The correlation between channel1 (Cy3) & Channel 2 (Cy5) pixels within the spot, and is a useful quality control parameter. Generally, high values imply better fit & good spot quality.; Type: float; Scale: linear_scale
DIAMETER The diameter in um of the feature-indicator.; Type: integer; Scale: linear_scale
X_COORD X-coordinate of the center of the spot-indicator associated with the spot, where (0,0) is the top left of the image.; Type: integer; Scale: linear_scale
Y_COORD Y-coordinate of the center of the spot-indicator associated with the spot, where (0,0) is the top left of the image.; Type: integer; Scale: linear_scale
TOP Box top: int(((centerX - radius) - Xoffset) / pixelSize).; Type: integer; Scale: linear_scale
BOT Box bottom: int(((centerX + radius) - Xoffset) / pixelSize).; Type: integer; Scale: linear_scale
LEFT Box left: int(((centerY - radius) - yoffset) / pixelSize).; Type: integer; Scale: linear_scale
RIGHT Box right: int(((centerY + radius) - yoffset) / pixelSize); Type: integer; Scale: linear_scale
FLAG The type of flag associated with a feature: -100 = user-flagged null spot; -50 = software-flagged null spot; 0 = spot valid.; Type: integer; Scale: linear_scale
CH2IN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity (CH2I_MEAN/Normalization factor).; Type: integer; Scale: linear_scale; Channel: Cy5 channel
CH2BN_MEDIAN Normalized value of median Channel 2 (usually 635 nm) background (CH2B_MEDIAN/Normalization factor).; Type: integer; Scale: linear_scale; Channel: Cy5 channel; Background
CH2DN_MEAN Normalized value of mean Channel 2 (usually 635 nm) intensity with normalized background subtracted (CH2IN_MEAN - CH2BN_MEDIAN).; Type: integer; Scale: linear_scale; Channel: Cy5 channel
RAT2N_MEAN Type: float; Scale: linear_scale
CH2IN_MEDIAN Normalized value of median Channel 2 (usually 635 nm) intensity (CH2I_MEDIAN/Normalization factor).; Type: integer; Scale: linear_scale
CH2DN_MEDIAN Normalized value of median Channel 2 (usually 635 nm) intensity with normalized background subtracted (CH2IN_MEDIAN - CH2BN_MEDIAN).; Type: integer; Scale: linear_scale
RAT1N_MEAN Ratio of the means of Channel 1 (usually 532 nm) intensity to normalized Channel 2 (usually 635 nm) intensity with median background subtracted (CH1D_MEAN/CH2DN_MEAN). Channel 1/Channel 2 ratio normalized or Green/Red ratio normalized.; Type: float; Scale: linear_scale
RAT2N_MEDIAN Channel 2/Channel 1 ratio normalized, RAT2_MEDIAN/Normalization factor or Red/Green median ratio normalized.; Type: float; Scale: linear_scale
LOG_RAT2N_MEAN Log (base 2) of the ratio of the mean of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm) [log (base 2) (RAT2N_MEAN)].; Type: float; Scale: log_base_2
VALUE Log (base 2) of the ratio of the median of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm) [log (base 2) (RAT2N_MEDIAN)].; Type: float; Scale: log_base_2

Data table
ID_REF CH1I_MEAN CH2I_MEAN CH1B_MEDIAN CH2B_MEDIAN CH1D_MEAN CH2D_MEAN CH1I_MEDIAN CH2I_MEDIAN CH1B_MEAN CH2B_MEAN CH1D_MEDIAN CH2D_MEDIAN CH1_PER_SAT CH2_PER_SAT CH1I_SD CH2I_SD CH1B_SD CH2B_SD PERGTBCH1I_1SD PERGTBCH2I_1SD PERGTBCH1I_2SD PERGTBCH2I_2SD SUM_MEAN SUM_MEDIAN RAT1_MEAN RAT2_MEAN RAT2_MEDIAN PIX_RAT2_MEAN PIX_RAT2_MEDIAN RAT2_SD TOT_SPIX TOT_BPIX REGR CORR DIAMETER X_COORD Y_COORD TOP BOT LEFT RIGHT FLAG CH2IN_MEAN CH2BN_MEDIAN CH2DN_MEAN RAT2N_MEAN CH2IN_MEDIAN CH2DN_MEDIAN RAT1N_MEAN RAT2N_MEDIAN LOG_RAT2N_MEAN VALUE
1 1154 1998 118 113 1036 1885 1222 2106 121 118 1104 1993 0 0 713 1321 29 38 97 96 97 92 2921 3097 .55 1.819 1.805 1.662 1.712 2.249 80 412 1.897 .94 110 1590 8650 43 54 45 56 -100 1978 112 1866 1.801 2085 1973 .555 1.787 .849 .838
2 740 1583 121 122 619 1461 679 1262 123 128 558 1140 0 0 522 1284 29 42 85 88 81 85 2080 1698 .424 2.36 2.043 2.481 2.264 2.814 80 293 2.579 .91 100 1720 8640 43 53 59 69 -100 1567 121 1447 2.337 1250 1129 .428 2.023 1.225 1.016
3 4225 3043 129 143 4096 2900 2843 2366 133 149 2714 2223 0 0 3747 2715 38 59 87 85 85 82 6996 4937 1.412 .708 .819 .718 .662 3.61 120 526 .68 .9 130 1870 8640 41 54 72 85 0 3013 142 2871 .701 2343 2201 1.427 .811 -.513 -.302
4 4047 6718 133 157 3914 6561 4959 6604 137 167 4826 6447 0 0 2722 4792 44 76 98 96 96 94 10475 11273 .597 1.676 1.336 1.603 1.689 2.306 52 270 1.795 .91 90 2020 8640 43 52 89 98 0 6651 155 6496 1.66 6539 6383 .603 1.323 .731 .403
5 973 1521 125 138 848 1383 816 1130 129 146 691 992 0 0 723 1268 32 55 90 84 82 78 2231 1683 .613 1.631 1.436 1.558 1.449 2.501 52 284 1.754 .88 90 2160 8640 43 52 103 112 0 1506 137 1369 1.615 1119 982 .619 1.421 .691 .507
6 897 2240 122 122 775 2118 661 2001 125 130 539 1879 0 0 732 1982 30 47 84 84 78 80 2893 2418 .366 2.733 3.486 2.2 2.823 2.892 52 293 2.848 .94 90 2310 8640 43 52 118 127 0 2218 121 2097 2.706 1981 1860 .37 3.452 1.436 1.787
7 2056 1495 121 125 1935 1370 2184 1616 122 131 2063 1491 0 0 1278 974 27 49 90 91 88 88 3305 3554 1.412 .708 .723 .781 .734 1.924 80 396 .71 .92 110 2450 8650 43 54 131 142 0 1480 124 1356 .701 1600 1476 1.427 .716 -.513 -.483
8 5379 5136 126 144 5253 4992 4339 5762 132 153 4213 5618 0 0 4783 4271 55 70 83 81 80 78 10245 9831 1.052 .95 1.333 1.022 .901 2.328 80 390 .921 .94 110 2590 8640 42 53 145 156 0 5085 143 4943 .941 5705 5562 1.063 1.32 -.088 .401
9 1078 1884 132 145 946 1739 894 1490 140 160 762 1345 0 0 894 1630 61 96 76 83 75 82 2685 2107 .544 1.838 1.765 1.832 1.697 2.646 80 321 1.908 .93 100 2740 8650 44 54 161 171 -100 1865 144 1722 1.82 1475 1332 .549 1.748 .864 .805
10 722 1659 125 134 597 1525 614 1528 131 139 489 1394 0 0 546 1281 31 47 84 86 82 84 2122 1883 .391 2.554 2.851 2.643 2.506 2.055 52 195 2.571 .92 80 2890 8640 44 52 177 185 -100 1643 133 1510 2.529 1513 1380 .395 2.822 1.339 1.497
11 1939 5197 128 147 1811 5050 1067 2679 132 157 939 2532 0 0 2008 5227 32 76 86 89 80 83 6861 3471 .359 2.789 2.696 2.888 2.589 2.657 120 421 3.064 .81 130 3030 8650 42 55 188 201 -100 5146 146 5000 2.761 2652 2507 .362 2.67 1.465 1.417
12 1952 2555 135 152 1817 2403 1440 2145 139 165 1305 1993 0 0 1838 2376 43 85 78 85 75 76 4220 3298 .756 1.323 1.527 1.391 1.263 2.244 80 262 1.321 .96 100 3170 8650 44 54 204 214 -100 2530 150 2379 1.309 2124 1973 .764 1.512 .389 .597
13 1131 2316 142 174 989 2142 1060 2364 145 182 918 2190 0 0 843 1741 34 80 88 87 80 85 3131 3108 .462 2.166 2.386 2.196 2.07 2.021 80 287 2.217 .92 100 3320 8650 44 54 219 229 -100 2293 172 2121 2.144 2341 2168 .466 2.362 1.101 1.24
14 728 1889 151 201 577 1688 569 1309 154 207 418 1108 0 0 567 1694 33 52 88 90 82 82 2265 1526 .342 2.925 2.651 2.459 3.05 2.057 52 252 3.123 .92 90 3460 8640 43 52 233 242 -100 1870 199 1671 2.897 1296 1097 .345 2.624 1.534 1.392
15 5285 6290 144 186 5141 6104 3821 4553 148 191 3677 4367 0 0 5025 5655 32 55 82 84 78 82 11245 8044 .842 1.187 1.188 1.401 1.194 2.498 120 410 1.159 .96 120 3610 8650 43 55 247 259 0 6228 184 6044 1.176 4508 4324 .851 1.176 .233 .234
16 1953 3055 144 191 1809 2864 1865 3443 149 200 1721 3252 0 0 1436 2323 34 68 88 93 82 87 4673 4973 .632 1.583 1.89 1.637 1.495 1.859 80 345 1.627 .94 110 3750 8640 42 53 261 272 0 3025 189 2836 1.568 3409 3220 .638 1.871 .648 .904
17 565 1061 150 212 415 849 550 677 177 312 400 465 0 0 344 986 234 1067 65 26 41 12 1264 865 .489 2.046 1.163 1.888 1.851 2.117 80 308 4.671 .67 100 3900 8640 43 53 277 287 -100 1050 210 841 2.026 670 460 .494 1.151 1.018 .203
18 315 539 144 171 171 368 265 422 171 276 121 251 0 0 151 421 236 1076 33 7 2 0 539 372 .465 2.152 2.074 1.542 1.877 2.579 80 304 2.89 .8 100 4040 8640 43 53 291 301 -100 534 169 364 2.131 418 249 .469 2.054 1.091 1.038
19 2271 2783 141 173 2130 2610 2593 2836 148 185 2452 2663 0 0 1421 1761 56 79 88 90 85 86 4740 5115 .816 1.225 1.086 1.348 1.123 2.354 120 483 1.254 .91 130 4200 8640 41 54 305 318 0 2755 171 2584 1.213 2808 2637 .824 1.075 .279 .105
20 754 871 148 191 606 680 880 885 159 205 732 694 0 0 455 559 72 94 76 75 67 71 1286 1426 .891 1.122 .948 1.203 1.149 1.692 52 239 1.143 .87 90 4330 8630 42 51 320 329 0 862 189 673 1.111 876 687 .9 .939 .152 -.091

Total number of rows: 43008

Table truncated, full table size 9289 Kbytes.




Supplementary data files not provided

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