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Sample GSM69626 Query DataSets for GSM69626
Status Public on May 01, 2007
Title FVB_MMTV_Wnt1_CA02_506A_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_MMTV_Wnt1_CA02_506A
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_MMTV_Wnt1_CA02_506A_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 -3.505 22575 262 116 37 10 93 70 63 42 521 156 47 70 276 24 -3.293 .22 0 Y -3.505
2 .425 22470 55 15 36 6 106 55 63 43 544 156 47 80 24 33 .797 .5 0 Y .425
3 .332 22365 85 39 36 6 165 87 64 44 568 156 48 125 62 78 .652 .47 0 N .332
4 .194 22260 57 14 37 7 103 55 65 42 568 156 49 78 25 29 .536 .24 0 N .194
5 -.471 22155 779 394 36 7 749 371 63 41 544 156 47 567 840 606 -.515 .94 0 N -.471
6 -1.502 22050 228 104 36 7 142 84 61 42 544 156 46 107 209 74 -1.653 .53 0 N -1.502
7 -3.031 21945 254 120 37 6 101 59 63 39 544 156 47 76 259 31 -2.9 .27 0 Y -3.031
8 -.795 21840 147 61 37 6 154 83 67 39 544 156 50 116 128 74 -.737 .59 0 N -.795
9 .801 21735 65 19 37 6 156 90 67 40 568 156 50 118 37 65 1.28 .55 0 N .801
10 .4 21630 71 25 37 6 146 95 65 39 568 156 49 110 45 60 .843 .59 0 N .4
11 -.119 21525 75 26 37 6 129 72 65 40 544 156 49 97 51 47 .337 .48 0 N -.119
12 .06 21420 71 23 36 6 133 70 66 45 544 156 50 100 47 49 .515 .39 0 N .06
13 .385 21315 75 23 36 6 154 80 65 45 544 156 49 116 51 67 .781 .52 0 N .385
14 -2.462 21210 265 130 37 5 114 58 61 40 544 156 46 86 258 46 -2.515 .42 0 Y -2.462
15 .367 21105 205 77 37 6 291 151 64 40 568 156 48 220 171 221 .034 .81 0 N .367
16 .144 21000 58 21 36 14 108 66 66 41 568 156 50 81 28 31 .495 .41 0 N .144
17 -.099 20895 109 44 37 14 163 93 63 39 544 156 47 123 87 81 .079 .63 0 N -.099
18 -2.9 20790 1027 555 37 6 208 108 61 38 544 156 46 157 1042 139 -3.158 .78 0 N -2.9
19 -.496 20685 1870 978 37 6 2140 1021 64 34 544 156 48 1621 2316 1642 -.221 .96 0 N -.496
20 .301 20580 158 69 37 7 231 123 63 35 544 156 47 175 128 158 .081 .78 0 N .301

Total number of rows: 22575

Table truncated, full table size 1828 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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