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Sample GSM69651 Query DataSets for GSM69651
Status Public on May 01, 2007
Title FVB_Wap_Myc_CA02_549A_CHURCHILL
Sample type RNA
 
Channel 1
Source name Mouse reference
Organism Mus musculus
Characteristics Whole mouse total RNA
Biomaterial provider Cam Patterson-UNC-CH
Extracted molecule total RNA
Label Cy3
 
Channel 2
Source name FVB_Wap_Myc_CA02_549A
Organism Mus musculus
Characteristics mammary tumor
Biomaterial provider Gary Churchill - JAX
Extracted molecule total RNA
Label Cy5
 
 
Scan protocol Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000B fluorescent scanner and image intensity data were extracted and analyzed with GenePix Pro 4.1 analysis software.
Description FVB_Wap_Myc_CA02_549A_CHURCHILL
Data processing Data for both channels were Lowess-normalized and then log(2) ratio was taken
 
Submission date Aug 11, 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 GPL891
Series (3)
GSE3165 Identification of conserved gene expression features across human and murine mammary tumors
GSE14457 Rb deletion in mammary stem/progenitor epithelium induces tumors with features of luminal-B or basal-like breast cancer
GSE65677 The Six1 oncoprotein represses translation of p53 via concomitant regulation of RPL26 and microRNA-27a
Relations
Affiliated with GSE34479

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 -5.429 22575 562 217 38 6 51 19 38 12 521 156 37 50 541 12 -5.322 .35 0 Y -5.429
2 .379 22470 55 13 38 6 50 18 38 13 544 156 37 49 12 16 -.502 .24 0 Y .379
3 .548 22365 71 17 37 7 82 34 38 14 568 156 37 81 31 46 .372 .65 0 N .548
4 .544 22260 59 16 37 6 61 56 38 13 568 156 37 60 18 27 .064 .49 0 N .544
5 -1.09 22155 576 223 37 6 346 141 39 13 544 156 38 342 593 278 -.826 .96 0 N -1.09
6 -1.461 22050 131 56 37 6 73 188 39 13 544 156 38 72 93 34 -1.466 .26 0 N -1.461
7 -5.899 21945 461 200 37 6 47 16 40 14 544 156 39 46 420 7 -5.878 .18 0 Y -5.899
8 -1.735 21840 90 34 37 7 52 20 40 13 544 156 39 51 46 13 -2.146 .32 0 N -1.735
9 .161 21735 59 13 37 16 55 21 39 15 568 156 38 54 17 19 -.46 .32 0 N .161
10 .628 21630 73 21 37 16 90 40 39 14 568 156 38 89 34 53 .503 .69 0 N .628
11 -.559 21525 81 26 37 8 64 27 39 14 544 156 38 63 40 27 -.816 .51 0 N -.559
12 .091 21420 63 18 37 8 58 33 38 14 544 156 37 57 22 23 -.379 .45 0 N .091
13 1.334 21315 71 19 37 7 122 50 38 13 544 156 37 120 33 84 1.287 .8 0 N 1.334
14 -5.288 21210 482 212 36 7 50 19 38 13 544 156 37 49 457 11 -5.211 .34 0 Y -5.288
15 -1.043 21105 110 34 37 7 72 29 38 14 568 156 37 71 71 34 -1.102 .62 0 N -1.043
16 .065 21000 57 13 37 6 50 18 38 13 568 156 37 49 15 15 -.737 .3 0 N .065
17 .519 20895 82 23 36 6 104 48 39 13 544 156 38 102 45 65 .476 .76 0 N .519
18 -1.948 20790 276 135 37 8 108 51 39 13 544 156 38 106 252 65 -1.811 .84 0 N -1.948
19 .048 20685 1564 703 37 8 2292 1127 39 13 544 156 38 2269 1824 1885 .547 .99 0 N .048
20 .713 20580 120 45 37 7 188 90 38 12 544 156 37 186 87 142 .844 .92 0 N .713

Total number of rows: 22575

Table truncated, full table size 1803 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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