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Sample GSM69581 Query DataSets for GSM69581
Status Public on May 01, 2007
Title BALB_p53het_IR_A1446_1_KOLLER_repeat
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 BALB_p53het_IR_A1446_1
Organism Mus musculus
Characteristics mammary tumor
Biomaterial provider Beverly Koller - UNC
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 BALB_p53het_IR_A1446_1_KOLLER_repeat
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 -2.569 22575 255 119 50 13 82 40 53 29 521 156 53 82 187 31 -2.826 .33 0 Y -2.569
2 .145 22470 85 26 52 13 70 35 53 27 544 156 53 70 22 24 -.957 .13 0 Y .145
3 -.063 22365 148 63 52 339 132 68 52 27 568 156 52 132 89 85 -.264 .13 0 N -.063
4 -.131 22260 127 44 51 339 107 54 52 27 568 156 52 107 67 61 -.466 .09 0 N -.131
5 -1.31 22155 4056 2135 51 14 2456 1351 53 28 544 156 53 2456 4884 1970 -.737 .97 0 N -1.31
6 -3.229 22050 454 201 51 14 95 46 54 29 544 156 54 95 393 41 -3.293 .42 0 N -3.229
7 -2.097 21945 233 112 52 14 89 51 53 29 544 156 53 89 166 39 -2.329 .41 0 Y -2.097
8 .029 21840 188 80 51 15 188 96 53 31 544 156 53 188 134 137 -.022 .77 0 N .029
9 -.006 21735 82 26 52 15 64 33 52 32 568 156 52 64 19 18 -1.322 .1 0 N -.006
10 -.08 21630 105 35 53 13 84 42 52 29 568 156 52 84 41 39 -.701 .29 0 N -.08
11 .098 21525 162 68 53 13 159 81 52 28 544 156 52 159 104 111 -.026 .75 0 N .098
12 -.006 21420 135 44 52 13 120 54 51 27 544 156 51 120 75 75 -.267 .59 0 N -.006
13 -.803 21315 451 2908 52 13 313 1147 53 27 544 156 53 313 425 243 -.617 .97 0 N -.803
14 -2.479 21210 256 117 52 16 84 44 53 29 544 156 53 84 187 33 -2.718 .32 0 Y -2.479
15 -.672 21105 377 218 52 16 280 169 54 29 568 156 54 280 342 214 -.525 .89 0 N -.672
16 .22 21000 90 30 53 14 74 42 51 28 568 156 51 74 27 31 -.685 .22 0 N .22
17 -.009 20895 203 100 52 14 199 111 51 28 544 156 51 199 149 149 -.029 .83 0 N -.009
18 -1.468 20790 1779 910 52 14 895 455 53 29 544 156 53 895 2005 725 -1.035 .96 0 N -1.468
19 -.949 20685 6416 3167 53 14 5218 2519 50 27 544 156 50 5218 7967 4127 -.3 .98 0 N -.949
20 -.814 20580 727 319 54 14 518 248 50 28 544 156 50 518 744 423 -.525 .93 0 N -.814

Total number of rows: 22575

Table truncated, full table size 1884 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
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