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Sample GSM1723 Query DataSets for GSM1723
Status Public on Jun 27, 2002
Title MCF7 vs NF (sva126)
Sample type genomic
 
Channel 1
Source name NF
Organism Homo sapiens
Extracted molecule genomic DNA
 
Channel 2
Source name MCF7
Organism Homo sapiens
Extracted molecule genomic DNA
 
 
Description Category: Breast
Subcategory: aCGH cell line
Scanning Software: unknown
Software version: unknown
Lot batch = sva126_sf
 
Submission date May 23, 2002
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) array@genome.stanford.edu
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL179
Series (1)
GSE49 DNA copy-number changes

Data table header descriptions
ID_REF
CH1B_MEDIAN median channel 1 background
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean channel 2 signal
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEDIAN median of channel 2 background
CH2BN_MEDIAN normalized CH2B_MEDIAN
CH2DN_MEAN normalized CH2D_MEAN
CH2IN_MEAN normalized CH2I_MEAN
CORR simple correlation coefficient of channel 1 and channel 2 pixels
FLAG user defined flag (default=0)
VALUE same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN ratio of CH2DN_MEAN and CH1DN_MEAN
REGR slope of the simple regression line of channel 2 to channel 1 pixels
TOP vertical, short-axis spot ellipse minimum pixel coordinate
BOT vertical, short-axis spot ellipse maximum pixel coordinate
LEFT horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE aka LOG_RAT2N_MEAN, or log2 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_MEDIAN CH2BN_MEDIAN CH2DN_MEAN CH2IN_MEAN CORR FLAG VALUE PIX_RAT2_MEDIAN PERGTBCH1I_1SD PERGTBCH2I_1SD RAT1_MEAN RAT1N_MEAN RAT2_MEAN RAT2N_MEAN REGR TOP BOT LEFT RIGHT UNF_VALUE
1 504 1940 3023 2407 616 616 2407 3023 .967 0 .311 1.196 0 0 .806 .806 1.241 1.241 1.257 40 47 98 105 .311
2 496 1606 2409 1793 616 616 1793 2409 .981 0 .159 1.232 0 0 .896 .896 1.116 1.116 1.106 39 46 109 116 .159
3 496 44 673 49 624 624 49 673 .556 0 .155 2.182 0 0 .898 .898 1.114 1.114 .798 40 47 120 127 .155
4 496 11 624 624 624 0 624 .227 0 1.667 0 0 0 .362 40 47 130 137
5 504 98 698 74 624 624 74 698 .879 0 -.405 .816 0 0 1.324 1.324 .755 .755 .843 40 47 140 147 -.405
6 504 19 646 22 624 624 22 646 .339 0 .212 .6 0 0 .864 .864 1.158 1.158 .254 40 47 150 157 .212
7 504 23 632 16 616 616 16 632 .12 0 -.524 .5 0 0 1.438 1.438 .696 .696 .128 40 47 160 167 -.524
8 504 5 615 616 616 -1 615 .204 0 1 0 0 .216 40 47 170 177
9 504 13 626 2 624 624 2 626 .071 0 -2.7 2 0 0 6.5 6.5 .154 .154 .094 40 47 180 187 -2.7
10 504 8 630 6 624 624 6 630 .13 0 -.415 1.5 0 0 1.333 1.333 .75 .75 .181 40 47 190 197 -.415
11 504 2 646 22 624 624 22 646 0 3.459 1.25 0 0 .091 .091 11 11 40 47 200 207 3.459
12 496 6 624 8 616 616 8 624 .206 0 .415 1.167 0 0 .75 .75 1.333 1.333 .332 40 47 210 217 .415
13 504 781 1177 561 616 616 561 1177 .973 0 -.477 .72 0 0 1.392 1.392 .718 .718 .789 39 46 219 226 -.477
14 512 581 1250 626 624 624 626 1250 .941 0 .108 1.073 0 0 .928 .928 1.077 1.077 1.109 39 46 229 236 .108
15 512 856 1433 809 624 624 809 1433 .962 0 -.081 .983 0 0 1.058 1.058 .945 .945 .976 39 46 239 246 -.081
16 512 939 1634 1010 624 624 1010 1634 .97 0 .105 1.049 0 0 .93 .93 1.076 1.076 1.054 39 46 249 256 .105
17 512 718 948 324 624 624 324 948 .938 0 -1.148 .444 0 0 2.216 2.216 .451 .451 .458 39 46 259 266 -1.148
18 520 1017 1992 1360 632 632 1360 1992 .962 0 .419 1.339 0 0 .748 .748 1.337 1.337 1.308 39 46 269 276 .419
19 520 3144 5328 4696 632 632 4696 5328 .963 0 .579 1.411 0 0 .67 .67 1.494 1.494 1.479 39 46 279 286 .579
20 512 1876 2849 2225 624 624 2225 2849 .965 0 .246 1.173 0 0 .843 .843 1.186 1.186 1.165 39 46 289 296 .246

Total number of rows: 6720

Table truncated, full table size 688 Kbytes.




Supplementary data files not provided
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