NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM156895 Query DataSets for GSM156895
Status Public on Oct 20, 2007
Title ARD291, CAIS, F, GOF
Sample type RNA
 
Channel 1
Source name mixed reference (FR + CRG)
Organism Homo sapiens
Characteristics mixed reference (FR + CRG)
LabeledExtract: 18101.Channel_1
Extracted molecule total RNA
Extraction protocol not provided
Label Cy3
Label protocol not provided
 
Channel 2
Source name ARD291, 14 days DMEM F12, 12.9% FCS, G0
Organism Homo sapiens
Characteristics ARD291, 14 days DMEM F12, 12.9% FCS, G0
LabeledExtract: 18101.Channel_2
Extracted molecule total RNA
Extraction protocol not provided
Label Cy5
Label protocol not provided
 
 
Hybridization protocol not provided
Scan protocol not provided
Description Simple annotation: Development, androgen
Image: http://smd.stanford.edu/MicroArray/gifs/2001-07/18101.gif
Disease State: CAIS
Cell Line: gonadal fibroblasts
Sex/Mating type: 46,XY
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 Jan 18, 2007
Last update date Oct 20, 2007
Contact name Paul-Martin Holterhus
E-mail(s) [email protected]
Phone +49 (0) 431-597 3959
Fax +49 (0) 431-597 3966
Organization name Universitätsklinikum Schleswig-Holstein
Department Pädiatrische Endokrinologie und Diabetologie
Lab Klinik für Allgemeine Pädiatrie
Street address Campus Kiel, Schwanenweg 20
City Kiel
ZIP/Postal code D-24105
Country Germany
 
Platform ID GPL2938
Series (1)
GSE6796 Fibroblasts from genital and extragenital regions of 46,XY individuals

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
1 523 404 274 152 249 252 507 416 298 184 233 264 0 0 159 118 119 103 77 86 48 66 501 497 .988 1.012 1.133 1.041 .994 2.282 80 337 1.305 .66 100 1360 9430 74 84 71 81 0 434 163 271 1.087 447 284 .92 1.217 .12 .283
2 302 285 332 188 -30 97 277 203 531 297 -55 15 0 0 119 235 779 287 0 15 0 3 67 -40 null null null .99 .905 4.89 120 370 5.56 .23 120 1490 9430 73 85 83 95 -100 306 202 104 null 218 16 null null null null
3 1691 963 334 190 1357 773 1726 1015 615 361 1392 825 0 0 648 316 643 360 83 87 56 61 2130 2217 1.755 .57 .593 .627 .57 1.979 80 297 .708 .6 110 1630 9420 72 83 97 108 0 1034 204 830 .612 1090 886 1.635 .636 -.709 -.652
4 295 345 303 211 -8 134 276 203 500 1160 -27 -8 0 0 114 331 463 2298 0 0 0 0 126 -35 null null null 1.749 1.469 5.265 120 346 8.452 .29 120 1760 9430 73 85 110 122 -100 371 227 144 null 218 -9 null null null null
5 1191 6393 292 210 899 6183 1235 6579 513 1896 943 6369 0 0 376 1617 459 2996 86 96 60 58 7082 7312 .145 6.878 6.754 7.287 6.853 1.492 80 329 6.68 .93 110 1900 9430 73 84 124 135 0 6866 226 6640 7.386 7065 6840 .135 7.253 2.885 2.859
6 356 1500 268 179 88 1321 332 1487 265 188 64 1308 0 0 139 576 71 66 46 100 34 100 1409 1372 .067 15.011 20.438 11.095 9.694 2.245 32 127 15.694 .36 70 2060 9420 74 81 142 149 -100 1611 192 1419 16.121 1597 1405 .062 21.949 4.011 4.456
7 622 819 308 217 314 602 576 757 448 538 268 540 0 0 355 552 368 640 40 43 15 10 916 808 .522 1.917 2.015 1.504 1.296 3.29 120 455 2.588 .63 120 2160 9430 73 85 150 162 -100 880 233 647 2.059 813 580 .486 2.164 1.042 1.114
8 1701 2382 301 193 1400 2189 1673 2204 531 579 1372 2011 0 0 489 669 533 798 96 100 73 82 3589 3383 .64 1.564 1.466 1.598 1.563 1.337 80 304 1.635 .92 110 2310 9430 73 84 165 176 0 2558 207 2351 1.679 2367 2160 .596 1.574 .748 .655
9 514 2188 260 157 254 2031 412 1213 286 178 152 1056 0 0 286 1961 164 118 46 98 30 98 2285 1208 .125 7.996 6.947 7.264 9.261 3.849 52 249 15.557 .43 90 2440 9410 72 81 179 188 -100 2350 169 2181 8.587 1303 1134 .116 7.461 3.102 2.899
10 410 306 260 158 150 148 411 300 268 171 151 142 0 0 115 86 82 69 73 80 44 53 298 293 1.014 .987 .94 .902 .774 2.856 52 182 4.544 .24 80 2590 9410 73 81 195 203 0 329 170 159 1.06 322 152 .944 1.01 .084 .014
11 716 1195 245 144 471 1051 665 828 254 149 420 684 0 0 380 886 81 54 86 100 67 98 1522 1104 .448 2.231 1.629 2.109 2.397 6.323 80 239 17.485 .15 110 2720 9430 73 84 206 217 -100 1283 155 1129 2.396 889 735 .417 1.749 1.261 .807
12 300 237 255 140 45 97 259 203 259 145 4 63 0 0 139 117 73 48 30 59 22 35 142 67 .464 2.156 15.75 .936 1.068 3.089 120 330 1.627 .53 120 2840 9430 73 85 218 230 0 255 150 104 2.315 218 68 .432 16.915 1.211 4.08
13 570 499 260 158 310 341 552 491 263 159 292 333 0 0 182 150 74 51 92 100 83 96 651 625 .909 1.1 1.14 1.203 1.045 2.54 80 272 1.636 .64 110 2990 9430 73 84 233 244 0 536 170 366 1.181 527 358 .847 1.225 .24 .292
14 502 281 256 165 246 116 490 280 264 176 234 115 0 0 154 88 73 63 87 73 81 43 362 349 2.121 .472 .491 .447 .479 2.334 80 257 1.098 .53 100 3130 9430 74 84 248 258 0 302 177 125 .506 301 124 1.975 .528 -.982 -.922
15 383 599 253 158 130 441 362 510 261 171 109 352 0 0 144 316 76 70 65 98 36 92 571 461 .295 3.392 3.229 2.315 2.047 2.603 52 178 11.182 .21 80 3270 9420 74 82 263 271 -100 643 170 474 3.643 548 378 .274 3.468 1.865 1.794
16 1060 602 244 143 816 459 1029 586 253 152 785 443 0 0 271 192 73 58 100 100 100 98 1275 1228 1.778 .563 .564 .541 .565 1.674 80 301 .804 .78 110 3400 9430 73 84 274 285 0 647 154 493 .604 629 476 1.655 .606 -.727 -.722
17 490 439 241 147 249 292 484 414 251 155 243 267 0 0 148 148 76 55 85 96 73 92 541 510 .853 1.173 1.099 1.271 1.143 2.446 80 261 1.702 .63 100 3540 9430 74 84 289 299 0 471 158 314 1.259 445 287 .794 1.18 .333 .239
18 480 362 263 152 217 210 478 337 282 159 215 185 0 0 127 142 125 53 73 88 40 73 427 400 1.033 .968 .86 .887 .923 2.883 80 293 2.522 .4 110 3670 9440 74 85 301 312 0 389 163 226 1.039 362 199 .962 .924 .056 -.114
19 480 521 274 161 206 360 485 503 293 165 211 342 0 0 128 126 129 49 68 100 33 100 566 553 .572 1.748 1.621 1.976 1.749 2.376 80 302 2.115 .51 100 3810 9430 74 84 316 326 0 560 173 387 1.877 540 367 .533 1.741 .908 .8
20 1392 1250 261 161 1131 1089 1335 1131 272 166 1074 970 0 0 522 472 86 52 100 100 98 100 2220 2044 1.039 .963 .903 .978 .972 1.489 80 319 1.027 .91 110 3950 9430 73 84 329 340 0 1342 173 1170 1.034 1215 1042 .967 .97 .048 -.044

Total number of rows: 44544

Table truncated, full table size 9595 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap