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Sample GSM80441 Query DataSets for GSM80441
Status Public on May 01, 2007
Title BALB_p53het_IR_C0323_4_KOLLER
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_C0323_4
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_C0323_4_KOLLER
Data processing Data for both channels were Lowess-normalized and then log(2) ratio was taken
 
Submission date Oct 27, 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 .584 22575 51 14 38 8 74 39 54 34 550 156 55 75 13 19 .621 .14 0 Y .584
2 .802 22470 46 10 38 8 71 33 56 36 576 156 57 72 8 14 .907 .07 0 Y .802
3 .413 22365 81 28 38 8 107 57 58 37 600 156 59 109 39 52 .218 .41 0 N .413
4 -.653 22260 57 19 39 20 74 39 62 41 600 156 63 75 18 11 -.584 -1 0 N -.653
5 -.587 22155 3287 1720 39 19 2546 1295 60 40 576 156 61 2597 3482 2318 -.357 .96 0 N -.587
6 -3.652 22050 420 215 39 8 85 43 58 34 576 156 59 86 359 28 -3.816 .3 0 N -3.652
7 .633 21945 51 11 40 8 73 39 55 33 576 156 56 74 11 17 .71 .03 0 Y .633
8 -1.325 21840 306 160 39 8 157 87 58 33 576 156 59 160 257 102 -1.404 .71 0 N -1.325
9 -.105 21735 50 13 39 8 70 36 59 35 600 156 60 71 11 10 0 -1 0 N -.105
10 .325 21630 73 26 39 8 94 49 57 36 600 156 58 95 31 39 .122 .29 0 N .325
11 .456 21525 107 45 39 8 137 70 56 35 576 156 57 139 63 86 .27 .61 0 N .456
12 .324 21420 77 25 38 9 98 52 56 36 576 156 57 100 36 45 .141 .3 0 N .324
13 -.432 21315 145 184 39 8 128 73 59 36 576 156 60 130 99 73 -.599 .24 0 N -.432
14 .584 21210 52 14 39 7 76 41 56 35 576 156 57 77 13 19 .621 .1 0 Y .584
15 -.106 21105 502 253 39 7 476 243 56 35 600 156 57 485 457 425 -.114 .91 0 N -.106
16 .476 21000 57 16 39 8 81 45 57 33 600 156 58 82 17 24 .415 .14 0 N .476
17 .026 20895 115 48 39 8 125 77 58 33 576 156 59 127 70 72 -.16 .57 0 N .026
18 -.857 20790 2805 1603 39 8 1771 990 60 36 576 156 61 1807 2927 1616 -.664 .96 0 N -.857
19 .209 20685 4168 2560 39 8 5826 3685 57 36 576 156 58 5944 4540 5246 .512 .97 0 N .209
20 -.323 20580 293 141 39 8 251 136 59 34 576 156 60 256 246 197 -.373 .85 0 N -.323

Total number of rows: 22575

Table truncated, full table size 1831 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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