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Sample GSM1915 Query DataSets for GSM1915
Status Public on Jun 27, 2002
Title BC308B-BE
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC308B-BE
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc87
 
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
1 229 154 2855 4253 3943 347 310 439 5581 6020 .909 0 .967 1.278 65 65 .724 .512 1.381 1.955 1.237 1217 52 96 104 75 83 .967
2 235 162 4167 3559 3244 354 315 446 4592 5038 .94 0 .14 .85 80 71 1.285 .907 .778 1.102 .733 1091 52 95 103 83 91 .14
3 233 164 3121 2802 2488 350 314 444 3522 3966 .92 0 .174 .734 86 78 1.254 .886 .797 1.128 .735 941 52 95 103 92 100 .174
4 236 169 1961 1055 739 348 316 447 1046 1493 .845 0 -.907 .402 76 71 2.654 1.875 .377 .533 .342 943 52 95 103 101 109 -.907
5 239 173 9480 1719 1400 347 319 452 1982 2433 .911 0 -2.258 .155 92 82 6.771 4.784 .148 .209 .14 945 52 95 103 110 118 -2.258
6 241 172 4211 4136 3820 344 316 447 5407 5854 .912 0 .361 .923 84 75 1.102 .779 .907 1.284 .862 941 52 95 103 119 127 .361
7 246 167 1342 6268 5953 345 315 446 8426 8872 .866 0 2.651 3.92 82 86 .225 .159 4.436 6.279 3.752 943 52 95 103 128 136 2.651
8 251 184 11186 8624 8313 337 311 440 11767 12207 .964 0 .073 .75 78 63 1.346 .951 .743 1.052 .752 963 52 94 102 137 145 .073
9 262 180 745 942 633 345 309 437 896 1333 .823 0 .266 .829 61 51 1.177 .831 .85 1.203 .774 959 52 94 102 146 154 .266
10 266 186 7126 5028 4722 342 306 433 6684 7117 .935 0 -.092 .634 65 61 1.509 1.066 .663 .938 .641 959 52 94 102 155 163 -.092
11 310 201 4454 3104 2791 359 313 443 3951 4394 .916 0 -.173 .639 75 75 1.596 1.127 .627 .887 .571 955 52 94 102 164 172 -.173
12 314 203 2402 1250 944 360 306 433 1336 1769 .901 0 -.846 .418 65 63 2.544 1.798 .393 .556 .357 939 52 95 103 173 181 -.846
13 299 200 2076 1884 1582 348 302 427 2239 2667 .871 0 .109 .681 76 73 1.312 .927 .762 1.079 .66 931 52 95 103 181 189 .109
14 297 197 1674 2057 1757 343 300 425 2487 2912 .916 0 .571 .982 88 71 .953 .673 1.05 1.486 .917 945 52 94 102 190 198 .571
15 274 199 19749 4422 4126 333 296 419 5840 6259 .94 0 -1.758 .213 75 67 4.786 3.381 .209 .296 .201 947 52 94 102 199 207 -1.758
16 246 179 1737 818 529 311 289 409 749 1158 .805 0 -1.214 .317 76 61 3.284 2.32 .305 .431 .276 943 52 94 102 208 216 -1.214
17 291 190 1154 1013 722 343 291 412 1022 1434 .825 0 -.175 .61 78 63 1.598 1.129 .626 .886 .61 945 52 94 102 217 225 -.175
18 297 197 115 336 47 344 289 409 67 476 .544 0 -.79 .667 48 26 2.447 1.729 .409 .579 .596 947 52 94 102 226 234 -.79
19 308 200 5510 3634 3351 347 283 401 4743 5144 .941 0 -.216 .651 80 80 1.644 1.162 .608 .861 .562 943 52 94 102 235 243 -.216
20 370 200 1274 1070 784 365 286 405 1110 1515 .814 0 -.199 .654 76 61 1.625 1.148 .615 .871 .499 963 52 93 101 244 252 -.199

Total number of rows: 9216

Table truncated, full table size 1136 Kbytes.




Supplementary data files not provided
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