NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1874 Query DataSets for GSM1874
Status Public on Jun 27, 2002
Title BC24
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC24
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc100
 
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 2954 2828 4351 18278 14033 4340 4245 5176 17111 22287 .91 0 1.975 3.101 44 50 .31 .254 3.225 3.933 2.67 1213 52 108 116 78 86 1.975
2 2859 2730 3821 7332 3306 4170 4026 4909 4031 8940 .817 0 .077 .874 65 61 1.156 .948 .865 1.055 .696 1085 52 107 115 86 94 .077
3 2731 2571 4529 5365 1538 3901 3827 4666 1875 6542 .738 0 -1.272 .335 59 36 2.945 2.415 .34 .414 .276 941 52 107 115 95 103 -1.272
4 2582 2441 3351 4000 354 3735 3646 4446 432 4877 .342 0 -2.957 .188 61 7 9.466 7.763 .106 .129 .102 949 52 107 115 104 112 -2.957
5 2465 2359 15225 4250 775 3575 3475 4237 945 5182 .626 0 -4.01 .065 65 21 19.645 16.112 .051 .062 .052 951 52 107 115 113 121 -4.01
6 2368 2282 5402 5370 2014 3439 3356 4092 2456 6548 .712 0 -1.137 .403 76 57 2.682 2.2 .373 .455 .273 947 52 107 115 122 130 -1.137
7 2279 2204 1530 4408 1206 3273 3202 3904 1470 5375 .678 0 -.057 .776 48 34 1.269 1.04 .788 .961 .575 939 52 107 115 131 139 -.057
8 2155 2083 12897 9827 6761 3102 3066 3738 8244 11982 .941 0 -.646 .527 59 50 1.908 1.564 .524 .639 .468 935 52 107 115 140 148 -.646
9 2070 1967 1069 3359 465 2986 2894 3529 567 4096 .479 0 -.915 .401 40 13 2.299 1.885 .435 .53 .264 945 52 106 114 148 156 -.915
10 2034 1913 8231 7108 4270 2943 2838 3460 5206 8667 .9 0 -.661 .481 59 44 1.928 1.581 .519 .633 .472 945 52 106 114 157 165 -.661
11 2001 1863 6941 6497 3663 2938 2834 3456 4466 7922 .83 0 -.636 .587 78 63 1.895 1.554 .528 .643 .431 947 52 106 114 166 174 -.636
12 1951 1796 2158 3889 1122 2888 2767 3374 1368 4742 .675 0 -.658 .522 48 36 1.923 1.577 .52 .634 .356 949 52 106 114 175 183 -.658
13 1921 1765 1429 3344 611 2853 2733 3332 745 4077 .451 0 -.94 .67 55 21 2.339 1.918 .428 .521 .334 951 52 106 114 184 192 -.94
14 2461 1799 776 3360 651 3357 2709 3303 794 4097 .919 0 .033 .65 42 21 1.192 .978 .839 1.023 .933 947 52 106 114 193 201 .033
15 2466 1764 12856 5931 3287 3307 2644 3224 4008 7232 .71 0 -1.682 .223 59 48 3.911 3.208 .256 .312 .254 939 52 106 114 202 210 -1.682
16 2433 1712 1828 3032 486 3208 2546 3104 593 3697 .877 0 -1.625 .302 53 15 3.761 3.085 .266 .324 .828 935 52 106 114 211 219 -1.625
17 2438 1690 1825 4649 2146 3166 2503 3052 2617 5669 .923 0 .52 1.199 61 51 .85 .697 1.176 1.434 .957 945 52 105 113 219 227 .52
18 2233 1650 379 2466 3002 2512 3063 -56 3007 .915 0 .953 21 7 .942 945 52 105 113 228 236
19 1758 1610 6468 11392 8913 2546 2479 3023 10868 13890 .877 0 .749 1.322 80 80 .726 .595 1.378 1.68 1.168 947 52 105 113 237 245 .749
20 1750 1582 1706 3762 1272 2575 2490 3036 1551 4587 .708 0 -.137 .781 51 40 1.341 1.1 .746 .909 .449 949 52 105 113 246 254 -.137

Total number of rows: 9216

Table truncated, full table size 1193 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap