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Sample GSM69602 Query DataSets for GSM69602
Status Public on May 01, 2007
Title FVB_DMBA_2_Adeno_GLAZER
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_DMBA_2_Adeno
Organism Mus musculus
Characteristics mammary tumor
Biomaterial provider Robert Glazer - Georgetown
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_DMBA_2_Adeno_GLAZER
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 -1.001 22575 64 13 34 5 61 27 44 21 521 156 38 53 31 15 -1 .18 0 Y -1.001
2 .248 22470 41 20 34 4 58 54 45 21 544 156 39 50 8 10 .652 .67 0 Y .248
3 .683 22365 66 15 34 5 99 45 45 21 568 156 39 86 32 52 .555 .6 0 N .683
4 .175 22260 45 8 34 5 62 30 45 21 568 156 39 53 12 14 .348 .2 0 N .175
5 -1.103 22155 425 135 35 5 233 102 45 20 544 156 39 202 396 184 -1.258 .89 0 N -1.103
6 -1.558 22050 93 32 35 4 66 31 45 21 544 156 39 57 59 20 -1.69 .3 0 N -1.558
7 -1.178 21945 59 16 35 4 59 26 46 22 544 156 40 51 26 11 -1.127 .19 0 Y -1.178
8 -1.51 21840 69 20 34 5 61 26 47 22 544 156 40 53 37 13 -1.431 .28 0 N -1.51
9 .369 21735 41 6 34 4 60 26 46 22 568 156 40 52 8 11 .777 .12 0 N .369
10 .719 21630 53 11 35 4 78 37 45 21 568 156 39 67 18 31 .638 .47 0 N .719
11 .027 21525 58 13 34 4 72 30 45 22 544 156 39 62 25 25 -.062 .34 0 N .027
12 .2 21420 52 9 35 5 69 32 46 22 544 156 40 60 18 21 .234 .31 0 N .2
13 1.101 21315 73 18 35 4 128 62 45 23 544 156 39 111 38 82 .922 .74 0 N 1.101
14 -1.278 21210 64 15 35 4 59 24 45 23 544 156 39 51 31 12 -1.272 .2 0 Y -1.278
15 .129 21105 85 25 34 4 101 48 44 22 568 156 38 87 51 56 -.057 .65 0 N .129
16 .372 21000 45 7 34 4 63 31 44 23 568 156 38 54 12 16 .541 .2 0 N .372
17 .674 20895 85 25 34 5 126 64 44 21 544 156 38 109 51 81 .477 .78 0 N .674
18 -1.534 20790 232 98 35 5 110 52 43 22 544 156 37 95 195 67 -1.766 .71 0 N -1.534
19 -.379 20685 710 399 35 5 622 368 44 21 544 156 38 540 712 547 -.427 .95 0 N -.379
20 .432 20580 146 46 35 5 193 89 45 22 544 156 39 167 110 148 .205 .85 0 N .432

Total number of rows: 22575

Table truncated, full table size 1750 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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