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Sample GSM69639 Query DataSets for GSM69639
Status Public on May 01, 2007
Title FVB_Wap_Int3_CA01_433A_dup_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_Int3_CA01_433A
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_Int3_CA01_433A_dup_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 -1.7 22575 66 21 32 4 59 29 42 17 521 156 31 44 43 13 -1.388 .33 0 Y -1.7
2 .347 22470 39 6 32 4 59 24 45 19 544 156 33 44 8 11 .652 .36 0 Y .347
3 .282 22365 50 10 32 11 80 43 45 34 568 156 33 59 22 27 .53 .67 0 N .282
4 .24 22260 41 6 32 12 62 26 43 34 568 156 32 46 12 14 .638 .7 0 N .24
5 -1.513 22155 303 146 32 6 149 75 43 19 544 156 32 111 286 100 -1.776 .86 0 N -1.513
6 -1.854 22050 112 38 33 4 72 55 43 19 544 156 32 53 91 25 -1.911 .4 0 N -1.854
7 -2.156 21945 67 21 33 4 56 26 43 20 536 156 32 41 44 9 -1.916 .25 0 Y -2.156
8 -1.924 21840 80 29 32 4 64 28 45 20 544 156 33 47 58 15 -1.776 .38 0 N -1.924
9 .609 21735 39 6 32 4 62 36 44 20 574 156 32 46 9 13 1 .18 0 N .609
10 1 21630 47 10 32 4 89 41 42 18 568 156 31 66 18 37 1.222 .63 0 N 1
11 -.349 21525 52 14 32 4 69 30 43 18 544 156 32 51 25 20 -.074 .45 0 N -.349
12 .291 21420 47 10 32 4 75 33 44 19 544 156 32 55 19 23 .616 .46 0 N .291
13 .849 21315 48 11 32 4 89 45 44 20 544 156 32 66 19 36 1.087 .62 0 N .849
14 -1.491 21210 68 22 32 8 64 36 44 19 544 156 32 47 44 16 -1.262 .36 0 Y -1.491
15 -.752 21105 101 39 32 5 94 133 42 19 568 156 31 70 77 46 -.824 .35 0 N -.752
16 .637 21000 42 7 32 4 70 29 42 19 568 156 31 52 13 20 1.07 .35 0 N .637
17 .891 20895 60 18 32 4 113 58 43 18 544 156 32 84 32 60 .893 .77 0 N .891
18 -1.267 20790 465 207 32 4 245 117 42 17 544 156 31 182 459 191 -1.519 .93 0 N -1.267
19 -1.021 20685 887 442 32 4 551 294 43 20 544 156 32 411 938 462 -1.175 .96 0 N -1.021
20 .407 20580 91 29 32 4 139 70 44 19 544 156 32 103 65 86 .267 .8 0 N .407

Total number of rows: 22575

Table truncated, full table size 1767 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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