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Sample GSM2111 Query DataSets for GSM2111
Status Public on Jun 27, 2002
Title MCF7_CL5001__BREAST
Sample type RNA
 
Channel 1
Source name Reference_Pool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name MCF7_CL5001__BREAST
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Cell-line
Subcategory: Pharmacogenomics
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = dtp2727
 
Submission date Jun 21, 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 GPL167
Series (1)
GSE59 Human cancer cell lines

Data table header descriptions
ID_REF
CH1B_MEAN mean channel 1 background
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_MEAN mean of channel 2 background
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
TOT_BPIX total number of background pixels
TOT_SPIX total number of signal (spot) 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_MEAN CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_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 TOT_BPIX TOT_SPIX TOP BOT LEFT RIGHT UNF_VALUE
1 874 872 2 2092 2278 2248 1917 -133 1784 .147 0 .546 0 0 .595 1213 52 29 37 33 41
2 868 872 11 1970 2223 2208 1882 -203 1680 .008 0 .333 0 0 .036 1085 52 28 36 41 49
3 863 864 1910 2152 2144 1828 -199 1628 .208 0 3 0 0 0 .851 945 52 28 36 50 58
4 858 856 1849 2078 2056 1753 -176 1576 .114 0 .143 0 0 0 .406 951 52 28 36 59 67
5 855 848 1820 2014 1992 1698 -147 1552 .246 0 2.786 0 0 0 .619 951 52 28 36 68 76
6 854 848 1783 1994 1952 1664 -144 1520 .211 0 7 0 0 0 .769 945 52 28 36 76 84
7 852 840 8 1794 1958 1928 1644 -114 1529 .221 0 3 0 0 .793 945 52 28 36 85 93
8 853 848 1688 1926 1912 1630 -191 1439 .269 0 0 0 0 .962 955 52 28 36 94 102
9 850 840 2 1743 1914 1904 1623 -137 1486 .253 0 1.778 0 0 .924 943 52 28 36 103 111
10 853 848 113 1760 1910 1896 1616 -116 1500 .174 0 .9 3 0 .364 933 52 28 36 111 119
11 851 848 1589 1878 1888 1610 -255 1355 .356 0 .714 0 0 0 .703 929 52 28 36 120 128
12 852 848 1591 1875 1864 1589 -233 1356 .372 0 .8 0 0 0 .799 931 52 28 36 129 137
13 849 840 1620 1859 1848 1576 -194 1381 .332 0 2.5 0 0 0 .667 931 52 28 36 138 146
14 844 840 1404 1848 1848 1576 -379 1197 .484 0 .25 0 0 0 2.207 931 52 28 36 147 155
15 844 840 1564 1848 1848 1576 -242 1333 .28 0 0 0 0 1.062 925 52 28 36 155 163
16 841 840 1650 1843 1840 1569 -162 1407 .341 0 1 0 0 0 1.172 925 52 28 36 164 172
17 840 840 1646 1838 1840 1569 -165 1403 .233 0 1 0 0 0 .859 939 52 28 36 173 181
18 841 840 1648 1840 1840 1569 -164 1405 .141 0 0 0 0 .505 931 52 28 36 182 190
19 839 840 1438 1840 1840 1569 -343 1226 .558 0 7.909 0 0 0 2.62 925 52 28 36 190 198
20 838 840 2 1472 1856 1848 1576 -321 1255 .056 0 2.75 1 0 .124 945 52 27 35 199 207

Total number of rows: 9984

Table truncated, full table size 1242 Kbytes.




Supplementary data files not provided
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