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Sample GSM156893 Query DataSets for GSM156893
Status Public on Oct 20, 2007
Title ARD208
Sample type RNA
 
Channel 1
Source name mixed reference (FR + CRG)
Organism Homo sapiens
Characteristics mixed reference (FR + CRG)
LabeledExtract: 17592.Channel_1
Extracted molecule total RNA
Extraction protocol not provided
Label Cy3
Label protocol not provided
 
Channel 2
Source name ARD208, 14 days DMEM F12, 15% FCS, Go
Organism Homo sapiens
Characteristics ARD208, 14 days DMEM F12, 15% FCS, Go
LabeledExtract: 17592.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/2001-06/17592.gif
Disease State: AIS-3
Cell Line: labioscrotal skin
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) holterhus@pediatrics.uni-kiel.de
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 GPL3039
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
1 388 289 188 76 200 213 388 288 193 79 200 212 0 0 86 99 50 31 95 96 88 92 413 412 .939 1.065 1.06 1.097 1.068 2.218 80 396 1.343 .76 100 1890 9450 56 66 72 82 0 320 84 236 1.18 319 235 .847 1.175 .239 .232
2 560 306 184 84 376 222 574 335 189 86 390 251 0 0 168 117 54 33 96 96 96 90 598 641 1.694 .59 .644 .564 .658 1.693 32 150 .815 .79 70 2050 9460 58 65 89 96 0 339 93 246 .654 371 278 1.528 .713 -.612 -.488
3 1152 816 184 79 968 737 1159 823 187 83 975 744 0 0 291 252 49 30 100 100 98 98 1705 1719 1.313 .761 .763 .729 .743 1.442 80 286 .848 .91 100 2180 9450 56 66 101 111 0 904 88 817 .844 912 824 1.185 .846 -.245 -.242
4 189 100 183 81 6 19 183 91 186 84 0 10 0 0 69 61 47 28 15 31 5 7 25 10 .316 3.167 null .534 .6 4.38 80 231 -1 -1 100 2310 9450 56 66 114 124 0 111 90 21 3.509 101 11 .285 null 1.811 null
5 759 428 186 77 573 351 750 442 186 78 564 365 0 0 167 120 49 25 100 97 100 95 924 929 1.632 .613 .647 .587 .622 1.696 80 306 .749 .85 100 2410 9430 54 64 124 134 0 474 85 389 .679 490 404 1.473 .717 -.559 -.48
6 239 127 192 74 47 53 215 117 196 75 23 43 0 0 108 62 52 25 40 62 26 42 100 66 .887 1.128 1.87 .502 .471 3.516 80 269 1.561 .45 100 2580 9450 56 66 141 151 0 141 82 59 1.25 130 48 .8 2.072 .322 1.051
7 741 735 200 70 541 665 738 735 204 74 538 665 0 0 181 151 57 28 98 100 97 100 1206 1203 .814 1.229 1.236 1.295 1.255 1.423 80 299 1.243 .91 110 2690 9430 53 64 151 162 0 815 78 737 1.362 815 737 .734 1.37 .446 .454
8 984 1108 190 78 794 1030 1010 1074 194 83 820 996 0 0 250 246 52 31 100 100 100 100 1824 1816 .771 1.297 1.215 1.352 1.283 1.509 80 287 1.324 .92 110 2820 9440 54 65 164 175 0 1228 86 1141 1.438 1190 1104 .696 1.346 .524 .429
9 735 583 188 88 547 495 745 588 193 91 557 500 0 0 260 229 50 29 98 100 97 100 1042 1057 1.105 .905 .898 .923 .875 1.592 80 222 .972 .91 100 2960 9440 55 65 179 189 0 646 98 549 1.003 652 554 .997 .995 .004 -.008
10 237 113 198 81 39 32 233 110 205 86 35 29 0 0 60 40 57 30 34 47 10 22 71 64 1.219 .821 .829 .682 .712 4.346 120 363 3.125 .19 120 3080 9430 53 65 190 202 0 125 90 35 .909 122 32 1.1 .918 -.137 -.123
11 797 205 216 76 581 129 793 203 222 79 577 127 0 0 156 49 57 30 100 100 98 93 710 704 4.504 .222 .22 .215 .215 1.605 80 290 .311 .77 100 3230 9430 54 64 206 216 0 227 84 143 .246 225 141 4.064 .244 -2.023 -2.036
12 391 214 226 69 165 145 380 202 233 72 154 133 0 0 78 78 54 26 90 98 76 94 310 287 1.138 .879 .864 .881 .95 2.006 52 217 1.231 .7 90 3370 9430 54 63 220 229 0 237 76 161 .974 224 147 1.027 .957 -.038 -.063
13 364 206 245 72 119 134 335 225 245 75 90 153 0 0 133 119 57 30 60 67 44 60 253 243 .888 1.126 1.7 .978 .955 2.778 120 382 1.233 .74 120 3490 9430 53 65 231 243 0 228 80 148 1.248 249 170 .801 1.884 .319 .914
14 418 191 242 72 176 119 401 187 242 79 159 115 0 0 91 47 54 34 94 98 69 90 295 274 1.479 .676 .723 .717 .693 2.133 52 241 1.198 .56 90 3630 9430 54 63 246 255 0 212 80 132 .749 207 127 1.335 .802 -.416 -.319
15 384 215 231 66 153 149 381 207 233 69 150 141 0 0 86 46 53 25 84 100 71 100 302 291 1.027 .974 .94 1.023 .904 1.967 52 269 1.21 .63 90 3770 9420 53 62 260 269 0 238 73 165 1.079 229 156 .927 1.042 .11 .059
16 777 424 231 66 546 358 758 422 231 68 527 356 0 0 152 87 54 22 100 100 100 100 904 883 1.525 .656 .676 .662 .681 1.397 80 275 .705 .88 100 3910 9430 54 64 274 284 0 470 73 397 .727 468 395 1.376 .749 -.461 -.418
17 484 398 224 66 260 332 484 396 228 69 260 330 0 0 96 96 58 29 100 100 90 100 592 590 .783 1.277 1.269 1.316 1.267 1.691 80 250 1.533 .78 100 4040 9430 54 64 287 297 0 441 73 368 1.415 439 366 .707 1.407 .501 .492
18 404 285 242 64 162 221 400 273 242 68 158 209 0 0 86 69 55 27 87 100 71 100 383 367 .733 1.364 1.323 1.503 1.26 2.009 80 288 1.526 .7 110 4180 9430 53 64 300 311 0 316 71 245 1.512 303 232 .661 1.466 .596 .552
19 366 137 238 67 128 70 363 135 245 70 125 68 0 0 63 37 55 23 87 88 60 72 198 193 1.829 .547 .544 .521 .531 2.327 80 256 .949 .56 100 4310 9420 53 63 314 324 0 152 74 78 .606 150 75 1.65 .603 -.723 -.73
20 708 744 239 68 469 676 726 699 244 72 487 631 0 0 204 204 55 25 93 100 92 100 1145 1118 .694 1.441 1.296 1.528 1.414 1.652 80 242 1.458 .9 110 4440 9440 54 65 326 337 0 824 75 749 1.597 775 699 .626 1.436 .676 .522

Total number of rows: 44544

Table truncated, full table size 9462 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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