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Sample GSM52920 Query DataSets for GSM52920
Status Public on Nov 23, 2005
Title A8-Liver-Met
Sample type RNA
 
Channel 1
Source name Stratagene Human Universal Reference that contained 1/10 added MCF7 and ME16C RNAs
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name Autopsy patient #8 Liver metastasis from breast
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Single Sample Predictor Subtype: HER+/ER-
 
Submission date Jun 02, 2005
Last update date Jul 17, 2015
Contact name Charles M. Perou
E-mail(s) cperou@med.unc.edu
Organization name University of North Carolina at Chapel Hill
Department Professor of Genetics, and Pathology & Laboratory Medicine; Lineberger Comprehensive Cancer Center
Street address 12-044 Lineberger Comprehensive Cancer Center CB# 7295
City Chapel Hill
State/province NC
ZIP/Postal code 27599-7264
Country USA
 
Platform ID GPL887
Series (2)
GSE2741 Breast Tumor's study
GSE26338 Genomic analysis identifies unique signatures predictive of brain, lung, and liver relapse

Data table header descriptions
ID_REF Spot Reference ID
VALUE same as UNF_VALUE but with flagged values removed
SPOT spot number on array
CH1_MEAN channel 1 mean intensity
CH1_SD standard deviation of channel 1 intensity
CH1_BKD_MEDIAN channel 1 background median intensity
CH1_BKD_SD standard deviation of channel 1 background median intensity
CH2_MEAN channel 2 mean intensity
CH2_SD standard deviation of channel 2 intensity
CH2_BKD_MEDIAN channel 2 background median intensity
CH2_BKD_SD standard deviation of channel 2 background median intensity
TOT_BPIX number of background pixels
TOT_SPIX number of spot pixels
CH2BN_MEDIAN channel 2 normalized background median intensity
CH2IN_MEAN channel 2 normalized mean intensity
CH1DL_MEAN channel 1 Lowess_normalized mean intensity
CH2DL_MEAN channel 2 Lowess_normalized mean intensity
LOG_RAT2N_MEAN log2_ratio of (CH2IN_MEAN - CH2BN_MEDIAN) over (CH1_MEAN - CH1_BKD_MEDIAN), CH2IN_MEAN and CH2BN_MEDIAN are global-normalized intensities
CORR correlation coefficient among pixels
FLAG Spot flag. 0:not flagged; negative:flagged as bad spots; positive:flagged as good spots
CONTROL Y: control gene; N: not control
UNF_VALUE LOG_RAT2L_MEAN; log2_ratio of CH2DL_MEAN over CH1DL_MEAN

Data table
ID_REF VALUE SPOT CH1_MEAN CH1_SD CH1_BKD_MEDIAN CH1_BKD_SD CH2_MEAN CH2_SD CH2_BKD_MEDIAN CH2_BKD_SD TOT_BPIX TOT_SPIX CH2BN_MEDIAN CH2IN_MEAN CH1DL_MEAN CH2DL_MEAN LOG_RAT2N_MEAN CORR FLAG CONTROL UNF_VALUE
1 .079 22575 49 8 35 8 72 35 49 25 610 80 39 57 17 18 .363 .56 Y .079
2 .244 22470 47 7 36 6 71 34 52 28 586 80 41 56 13 15 .448 .1 Y .244
3 .019 22365 64 11 36 8 96 44 51 27 654 120 40 76 35 35 .363 .39 N .019
4 -.504 22260 466 85 35 10 349 96 51 26 724 120 40 279 426 300 -.849 .93 N -.504
5 -.738 22155 417 76 35 8 274 134 49 26 775 120 39 219 378 227 -1.086 .81 N -.738
6 .179 22050 50 8 39 8 73 29 55 24 170 32 44 58 13 14 .348 .15 Y .179
7 -.036 21945 48 8 36 21 68 34 51 222 582 80 40 54 14 14 .223 .2 Y -.036
8 1.772 21840 289 45 36 20 907 198 51 199 730 120 40 725 251 859 1.437 .89 N 1.772
9 -.257 21735 209 37 36 11 207 86 51 27 764 120 40 165 179 150 -.468 .81 N -.257
10 .459 21630 53 10 37 28 89 35 53 68 236 32 42 71 20 28 .858 .78 N .459
11 -.818 21525 64 15 36 7 77 38 51 27 684 120 40 61 35 20 -.415 .24 N -.818
12 .875 21420 104 17 35 7 203 68 47 24 738 120 37 162 76 140 .858 .79 N .875
13 .069 21315 51 8 35 6 75 38 48 26 568 80 38 60 20 21 .459 .26 N .069
14 .033 21210 52 7 40 10 73 34 55 31 170 32 44 58 14 14 .223 .2 Y .033
15 -1.138 21105 2413 293 36 5 1261 203 50 26 712 120 40 1008 2517 1143 -1.297 .98 N -1.138
16 .169 21000 65 12 36 9 103 45 52 30 737 120 41 82 36 40 .5 .5 N .169
17 -.018 20895 56 8 38 10 79 32 50 29 230 32 40 63 22 22 .354 .27 N -.018
18 1.802 20790 70 12 35 10 215 100 51 25 796 120 40 172 40 141 1.915 .69 N 1.802
19 20685 1000 180 35 6 1072 229 50 26 730 120 40 857 993 992 -.24 .97 0 Y
20 .516 20580 50 8 35 5 84 42 49 28 596 80 39 67 19 27 .901 .19 N .516

Total number of rows: 22575

Table truncated, full table size 1800 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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