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Sample GSM1905 Query DataSets for GSM1905
Status Public on Jun 27, 2002
Title BC214B-BE
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC214B-BE
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc92
 
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
1 562 391 3984 3973 3496 679 477 661 4845 5506 .893 0 .282 .836 67 67 1.14 .822 .878 1.216 .827 1213 52 101 109 69 77 .282
2 583 387 4268 3372 2911 687 461 639 4035 4673 .922 0 -.081 .695 73 80 1.466 1.058 .682 .945 .656 1085 52 100 108 77 85 -.081
3 604 379 3622 2495 2031 722 464 643 2815 3458 .883 0 -.364 .554 82 67 1.783 1.287 .561 .777 .582 945 52 100 108 86 94 -.364
4 571 375 2866 1046 580 691 466 646 804 1450 .655 0 -1.834 .25 69 50 4.941 3.565 .202 .28 .308 957 52 100 108 95 103 -1.834
5 507 379 16422 1799 1331 706 468 649 1845 2493 .544 0 -3.154 .081 82 80 12.338 8.902 .081 .112 .071 963 52 100 108 104 112 -3.154
6 501 386 4102 3588 3102 714 486 674 4299 4973 .835 0 .068 .754 80 78 1.322 .954 .756 1.048 .725 963 52 100 108 113 121 .068
7 484 386 1114 1923 1430 716 493 683 1982 2665 .7 0 .831 1.133 73 67 .779 .562 1.284 1.779 1.312 963 52 100 108 122 130 .831
8 490 386 10361 6783 6287 767 496 687 8714 9401 .938 0 -.25 .583 67 65 1.648 1.189 .607 .841 .585 963 52 100 108 131 139 -.25
9 449 386 844 1037 542 599 495 686 751 1437 .685 0 -.168 .561 55 38 1.557 1.124 .642 .89 .778 963 52 100 108 140 148 -.168
10 439 380 8522 7456 6987 589 469 650 9684 10334 .934 0 .184 .872 69 65 1.22 .88 .82 1.136 .824 963 52 100 108 149 157 .184
11 422 363 5728 4310 3860 572 450 624 5350 5973 .889 0 -.099 .699 80 80 1.484 1.071 .674 .934 .656 959 52 100 108 158 166 -.099
12 407 353 2156 1951 1499 560 452 626 2078 2704 .885 0 -.053 .73 53 53 1.438 1.038 .695 .964 .636 955 52 100 108 167 175 -.053
13 393 340 2726 2336 1888 552 448 621 2617 3238 .875 0 -.059 .64 75 73 1.444 1.042 .693 .96 .657 951 52 100 108 176 184 -.059
14 376 322 1930 2510 2076 528 434 602 2877 3479 .888 0 .576 1.164 75 69 .93 .671 1.076 1.491 1.006 947 52 100 108 185 193 .576
15 358 301 15628 9359 8936 504 423 586 12385 12971 .954 0 -.336 .608 82 75 1.749 1.262 .572 .792 .557 943 52 100 108 194 202 -.336
16 350 292 2442 1371 978 446 393 545 1355 1900 .77 0 -.849 .342 75 65 2.497 1.802 .4 .555 .394 943 52 100 108 203 211 -.849
17 403 279 1643 1778 1402 474 376 521 1943 2464 .867 0 .242 .835 84 71 1.172 .846 .853 1.183 .796 943 52 100 108 212 220 .242
18 413 279 132 423 61 476 362 502 85 586 .779 0 -.643 .66 32 17 2.164 1.561 .462 .64 .712 943 52 100 108 221 229 -.643
19 432 284 7603 8778 8423 483 355 492 11674 12166 .949 0 .619 1.116 84 92 .903 .651 1.108 1.535 .993 943 52 100 108 230 238 .619
20 466 291 2124 1771 1406 488 365 506 1949 2455 .836 0 -.124 .743 63 67 1.511 1.09 .662 .917 .556 943 52 100 108 239 247 -.124

Total number of rows: 9216

Table truncated, full table size 1138 Kbytes.




Supplementary data files not provided
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