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Sample GSM1885 Query DataSets for GSM1885
Status Public on Jun 27, 2002
Title BC214A-AF
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC214A-AF
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc103
 
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 (3)
GSE61 Molecular portraits of human breast tumors
GSE4336 Breast tumors
GSE4382 Repeated observation of breast tumor subtypes in independent gene expression data sets

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
1 275 208 2090 2184 1774 438 410 506 2189 2695 .954 0 .067 .82 63 46 1.178 .955 .849 1.047 .801 1221 52 66 74 77 85 .067
2 281 212 2892 2743 2333 439 410 506 2879 3385 .964 0 -.007 .908 71 63 1.24 1.005 .807 .995 .768 1093 52 65 73 85 93 -.007
3 294 217 2296 2014 1584 456 430 531 1954 2485 .918 0 -.232 .606 76 65 1.449 1.175 .69 .851 .642 943 52 65 73 94 102 -.232
4 305 224 1677 1176 742 456 434 536 916 1451 .901 0 -.873 .45 63 55 2.26 1.832 .442 .546 .398 945 52 65 73 103 111 -.873
5 293 219 6796 1706 1266 455 440 543 1562 2105 .942 0 -2.121 .195 76 59 5.368 4.351 .186 .23 .177 941 52 65 73 112 120 -2.121
6 287 217 3367 2793 2364 445 429 529 2917 3446 .943 0 -.207 .715 80 78 1.424 1.154 .702 .866 .638 937 52 65 73 121 129 -.207
7 285 213 1078 1597 1174 442 423 522 1449 1971 .856 0 .426 1.022 73 63 .918 .744 1.089 1.344 .953 949 52 64 72 130 138 .426
8 278 215 7897 5467 5052 439 415 512 6234 6746 .975 0 -.341 .651 73 51 1.563 1.267 .64 .789 .615 945 52 64 72 139 147 -.341
9 271 215 924 1180 765 446 415 512 944 1456 .925 0 .031 .78 63 50 1.208 .979 .828 1.022 .708 933 52 64 72 147 155 .031
10 277 221 4329 5656 5242 453 414 511 6468 6979 .914 0 .579 1.208 63 57 .826 .669 1.211 1.494 1.126 929 52 64 72 156 164 .579
11 288 231 3430 2812 2399 460 413 510 2960 3470 .939 0 -.213 .717 80 76 1.43 1.159 .699 .863 .66 941 52 64 72 165 173 -.213
12 284 223 1559 1461 1043 465 418 516 1287 1803 .934 0 -.277 .779 55 44 1.495 1.211 .669 .826 .639 937 52 64 72 174 182 -.277
13 280 216 988 1097 682 461 415 512 842 1354 .832 0 -.232 .595 76 55 1.449 1.174 .69 .852 .59 963 52 63 71 183 191 -.232
14 291 216 1050 1414 1002 455 412 508 1236 1745 .827 0 .236 .889 65 61 1.048 .849 .954 1.177 .791 959 52 63 71 192 200 .236
15 297 217 11993 7129 6719 440 410 506 8291 8796 .967 0 -.533 .531 80 67 1.785 1.447 .56 .691 .559 955 52 63 71 201 209 -.533
16 291 214 1734 1169 763 436 406 501 941 1442 .82 0 -.881 .376 75 57 2.273 1.842 .44 .543 .465 951 52 63 71 210 218 -.881
17 330 224 1538 1441 1032 458 409 505 1273 1778 .889 0 -.272 .687 73 55 1.49 1.208 .671 .828 .641 947 52 63 71 219 227 -.272
18 337 233 200 496 83 462 413 510 102 612 .663 0 -.966 .481 30 15 2.41 1.953 .415 .512 .531 943 52 63 71 228 236 -.966
19 331 245 6561 6966 6545 461 421 519 8076 8595 .972 0 .3 .971 80 71 1.002 .812 .998 1.231 .968 963 52 62 70 237 245 .3
20 357 245 1468 1247 820 475 427 527 1012 1539 .895 0 -.537 .59 57 48 1.79 1.451 .559 .689 .505 959 52 62 70 246 254 -.537

Total number of rows: 9216

Table truncated, full table size 1139 Kbytes.




Supplementary data files not provided
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