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Sample GSM69591 Query DataSets for GSM69591
Status Public on May 01, 2007
Title FVB_C3(1)_Tag_#74_GREEN
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_C3(1)_Tag_#74
Organism Mus musculus
Characteristics mammary tumor
Biomaterial provider Jeffrey Green - NCI
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_C3(1)_Tag_#74_GREEN
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 -7.462 22575 1196 547 50 24 46 13 39 14 521 156 35 41 1189 6 -7.644 .19 0 Y -7.462
2 -.244 22470 59 14 46 10 41 12 37 10 544 156 33 36 7 6 -2.114 .13 0 Y -.244
3 .17 22365 82 24 46 10 68 25 37 11 568 156 33 61 31 35 -.362 .61 0 N .17
4 .083 22260 63 15 45 10 46 15 36 11 568 156 32 41 13 13 -1 .15 0 N .083
5 -1.027 22155 1768 738 46 10 1267 562 37 9 544 156 33 1141 2077 1019 -.637 .99 0 N -1.027
6 -3.197 22050 211 79 47 10 54 18 38 10 544 156 34 48 155 16 -3.556 .54 0 N -3.197
7 -7.081 21945 1147 596 47 10 46 13 37 11 544 156 33 41 1157 8 -7.158 .33 0 Y -7.081
8 -1.301 21840 188 76 46 10 99 44 36 11 544 156 32 89 148 60 -1.318 .82 0 N -1.301
9 .308 21735 58 14 46 71 42 12 36 20 568 156 32 37 7 9 -1.262 .84 0 N .308
10 .938 21630 71 19 46 70 72 30 37 20 568 156 33 64 21 40 .31 .57 0 N .938
11 -.02 21525 88 30 46 10 71 28 38 10 544 156 34 63 37 36 -.535 .66 0 N -.02
12 .02 21420 79 23 46 11 62 22 38 10 544 156 34 55 27 28 -.653 .52 0 N .02
13 .092 21315 93 28 45 10 81 32 37 10 544 156 33 72 44 47 -.3 .72 0 N .092
14 -7.045 21210 1213 594 45 10 46 14 36 11 544 156 32 41 1241 9 -6.966 .32 0 Y -7.045
15 -.002 21105 204 82 46 10 231 113 37 10 568 156 33 208 175 174 .148 .93 0 N -.002
16 .186 21000 63 16 46 10 46 16 36 10 568 156 32 41 12 13 -.919 .19 0 N .186
17 .015 20895 109 41 46 10 98 44 37 10 544 156 33 88 61 62 -.196 .79 0 N .015
18 -.26 20790 755 407 46 10 869 523 38 11 544 156 34 782 839 701 .077 .98 0 N -.26
19 -.351 20685 2651 1590 46 10 3055 1947 38 10 544 156 34 2752 3165 2482 .061 .99 0 N -.351
20 -.045 20580 206 99 45 10 229 129 37 10 544 156 33 206 178 173 .104 .94 0 N -.045

Total number of rows: 22575

Table truncated, full table size 1832 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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