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Sample GSM1904 Query DataSets for GSM1904
Status Public on Jun 27, 2002
Title BC112B-BE
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC112B-BE
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc53
 
Submission date Jun 18, 2002
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) [email protected]
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 GPL180
Series (6)
GSE61 Molecular portraits of human breast tumors
GSE3193 Breast Tumor Clinical Implications
GSE3281 Breast Cancer aCGH

Data table header descriptions
ID_REF
CH1B_MEAN mean channel 1 background
CH1B_MEDIAN median channel 1 background
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean channel 2 signal
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN mean of channel 2 background
CH2B_MEDIAN median of channel 2 background
CH2BN_MEDIAN normalized CH2B_MEDIAN
CH2DN_MEAN normalized CH2D_MEAN
CH2IN_MEAN normalized CH2I_MEAN
CORR simple correlation coefficient of channel 1 and channel 2 pixels
FLAG user defined flag (default=0)
VALUE same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN ratio of CH2DN_MEAN and CH1DN_MEAN
REGR slope of the simple regression line of channel 2 to channel 1 pixels
TOT_BPIX total number of background pixels
TOT_SPIX total number of signal (spot) pixels
TOP vertical, short-axis spot ellipse minimum pixel coordinate
BOT vertical, short-axis spot ellipse maximum pixel coordinate
LEFT horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE aka LOG_RAT2N_MEAN, or log10 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF CH1B_MEAN CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_MEAN CH2B_MEDIAN CH2BN_MEDIAN CH2DN_MEAN CH2IN_MEAN CORR FLAG VALUE PIX_RAT2_MEDIAN PERGTBCH1I_1SD PERGTBCH2I_1SD RAT1_MEAN RAT1N_MEAN RAT2_MEAN RAT2N_MEAN REGR TOT_BPIX TOT_SPIX TOP BOT LEFT RIGHT UNF_VALUE
1 368 211 2103 3617 2407 1284 1210 1494 2971 4465 .887 0 .499 1.182 69 50 .874 .708 1.145 1.413 .916 1213 52 51 59 82 90 .499
2 374 206 2272 3471 2271 1276 1200 1481 2804 4285 .901 0 .303 .944 67 46 1 .81 1 1.234 .901 1069 52 51 59 90 98 .303
3 389 221 1712 2100 875 1305 1225 1512 1080 2592 .831 0 -.664 .527 65 42 1.957 1.585 .511 .631 .496 937 52 51 59 99 107 -.664
4 361 232 1725 1676 420 1310 1256 1551 518 2069 .403 0 -1.734 .143 61 15 4.107 3.327 .243 .301 .191 947 52 51 59 108 116 -1.734
5 307 232 6017 2819 1514 1322 1305 1611 1869 3480 .878 0 -1.687 .259 69 55 3.974 3.219 .252 .311 .226 951 52 51 59 117 125 -1.687
6 308 231 2128 2603 1271 1354 1332 1644 1569 3213 .875 0 -.44 .564 69 50 1.674 1.356 .597 .737 .509 955 52 51 59 126 134 -.44
7 311 222 505 2143 807 1356 1336 1649 996 2645 .539 0 .98 1.249 69 50 .626 .507 1.598 1.973 .722 959 52 51 59 135 143 .98
8 303 222 6892 4682 3337 1347 1345 1660 4119 5780 .935 0 -.742 .492 63 50 2.065 1.673 .484 .598 .466 963 52 51 59 144 152 -.742
9 300 213 423 1831 495 1340 1336 1649 611 2260 .349 0 .531 1.004 55 26 .855 .692 1.17 1.445 .546 959 52 51 59 153 161 .531
10 307 222 3494 2955 1631 1327 1324 1634 2013 3648 .891 0 -.795 .5 67 44 2.142 1.735 .467 .576 .429 955 52 51 59 162 170 -.795
11 301 220 2221 2887 1550 1336 1337 1650 1913 3564 .889 0 -.215 .717 71 50 1.433 1.161 .698 .862 .657 951 52 51 59 171 179 -.215
12 304 230 1364 1674 308 1372 1366 1686 380 2067 .641 0 -1.843 .214 63 15 4.429 3.587 .226 .279 .24 931 52 52 60 180 188 -1.843
13 301 230 715 1976 593 1390 1383 1707 732 2439 .731 0 .034 .9 78 34 1.206 .977 .829 1.024 .72 931 52 52 60 188 196 .034
14 312 252 666 1893 469 1431 1424 1758 579 2337 .506 0 -.202 .579 67 21 1.42 1.15 .704 .869 .431 941 52 52 60 197 205 -.202
15 318 263 8012 2707 1264 1454 1443 1781 1560 3342 .879 0 -2.36 .186 73 42 6.339 5.135 .158 .195 .145 951 52 52 60 206 214 -2.36
16 324 269 931 1596 153 1461 1443 1781 189 1970 .289 0 -2.301 .126 71 7 6.085 4.929 .164 .203 .137 955 52 52 60 215 223 -2.301
17 324 263 537 3632 2178 1477 1454 1795 2689 4484 .649 0 2.324 3.077 55 50 .247 .2 4.056 5.007 2.158 959 52 52 60 224 232 2.324
18 326 263 7 1671 206 1489 1465 1809 254 2063 .045 0 5.183 27.58 23 11 .034 .028 29.429 36.329 .146 963 52 52 60 233 241 5.183
19 306 230 2215 3199 1731 1480 1468 1812 2137 3949 .796 0 -.052 .799 76 55 1.28 1.037 .781 .965 .655 963 52 52 60 242 250 -.052
20 303 226 511 1811 335 1488 1476 1822 414 2236 .405 0 -.305 .851 59 15 1.525 1.236 .656 .809 .525 959 52 52 60 251 259 -.305

Total number of rows: 9216

Table truncated, full table size 1142 Kbytes.




Supplementary data files not provided
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