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Sample GSM80432 Query DataSets for GSM80432
Status Public on May 01, 2007
Title FVB_Wap_Myc_CA05_867A_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_CA05_867A
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_CA05_867A_CHURCHILL
Data processing Data for both channels were Lowess-normalized and then log(2) ratio was taken
 
Submission date Oct 27, 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 .275 22575 97 34 59 31 77 36 58 34 550 156 66 88 24 29 -.788 .11 0 Y .275
2 .465 22470 91 31 58 175 76 37 58 34 576 156 66 87 20 28 -.653 .04 0 Y .465
3 .241 22365 107 37 58 19 86 45 60 34 600 156 68 98 32 38 -.708 .24 0 N .241
4 .419 22260 93 35 58 20 77 40 58 34 600 156 66 88 22 29 -.669 .03 0 N .419
5 .198 22155 509 237 58 3662 541 268 58 2427 576 156 66 621 435 499 .3 .86 0 N .198
6 -2.834 22050 254 141 59 3662 74 39 60 2427 576 156 68 85 139 19 -3.523 .85 0 N -2.834
7 .324 21945 99 43 58 32 80 38 58 35 576 156 66 91 26 33 -.713 .14 0 Y .324
8 -2.132 21840 205 102 57 21 75 38 58 33 576 156 66 86 105 23 -2.889 .16 0 N -2.132
9 -.287 21735 97 30 59 2898 70 37 59 2685 600 156 67 80 22 18 -1.548 .28 0 N -.287
10 .328 21630 111 47 58 26 90 44 59 35 600 156 67 103 36 45 -.559 .25 0 N .328
11 21525 2473 8430 58 43 586 2380 60 39 576 156 68 673 2508 506 -1.994 .72 -100 N -2.309
12 .507 21420 116 50 59 5236 102 52 62 715 576 156 71 117 40 56 -.309 .86 0 N .507
13 -.756 21315 225 80 59 5236 127 59 62 715 576 156 71 145 134 79 -1.165 .54 0 N -.756
14 .527 21210 92 34 58 21 79 43 59 34 600 156 67 90 21 31 -.565 .1 0 Y .527
15 -.979 21105 271 119 56 20 133 70 56 35 600 156 64 152 180 91 -1.29 .57 0 N -.979
16 .368 21000 92 32 56 19 76 39 57 36 576 156 65 87 23 29 -.711 .13 0 N .368
17 -.09 20895 160 60 58 24 115 64 58 33 576 156 66 132 78 73 -.628 .38 0 N -.09
18 -1.782 20790 822 353 57 21 260 126 58 33 576 156 66 298 728 211 -1.723 .84 0 N -1.782
19 .665 20685 2758 1110 58 20 5792 2201 57 33 576 156 65 6657 3124 4955 1.287 .96 0 N .665
20 -.142 20580 224 100 56 45 165 80 56 32 600 156 64 189 142 128 -.427 .69 0 N -.142

Total number of rows: 22575

Table truncated, full table size 1870 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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