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Sample GSM2107 Query DataSets for GSM2107
Status Public on Jun 27, 2002
Title SW-620_CL4009_COLON
Sample type RNA
 
Channel 1
Source name Reference_Pool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name SW-620_CL4009_COLON
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Cell-line
Subcategory: Pharmacogenomics
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = dtp2795
 
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 1022 1016 25 638 54 589 584 679 62 741 .097 0 1.31 .9 0 3 .463 .403 2.16 2.48 .108 1213 52 18 26 44 52 1.31
2 1009 1000 26 610 42 576 568 660 49 709 .028 0 .914 .647 0 0 .619 .531 1.615 1.885 .021 1069 52 18 26 52 60 .914
3 992 992 10 593 41 564 552 641 48 689 .065 0 2.263 1.4 0 1 .244 .208 4.1 4.8 .05 925 52 18 26 61 69 2.263
4 985 984 16 555 3 558 552 641 4 645 .009 0 -2 1.375 0 0 5.333 4 .188 .25 .008 931 52 18 26 70 78 -2
5 974 976 481 553 544 632 559 .074 0 .5 0 0 0 .06 925 52 18 26 78 86
6 964 960 6 500 546 536 623 581 .008 0 .182 0 0 .006 925 52 18 26 87 95
7 956 952 524 538 536 623 609 .152 0 .667 0 0 0 .124 931 52 18 26 96 104
8 956 952 535 7 534 528 613 9 622 0 .571 0 0 0 931 52 18 26 105 113
9 951 952 535 7 534 528 613 9 622 .013 0 1.4 0 0 0 .011 925 52 18 26 113 121
10 950 944 180 670 150 536 520 604 175 779 .717 0 -.041 .968 17 26 1.2 1.029 .833 .972 .636 925 52 18 26 122 130 -.041
11 946 944 108 522 2 534 520 604 2 606 .327 0 -5.755 .415 1 1 54 54 .019 .019 .265 931 52 18 26 131 139 -5.755
12 941 936 33 500 539 512 595 581 .178 0 .611 0 0 .303 931 52 18 26 140 148
13 937 928 502 538 512 595 583 .231 0 .692 0 0 0 .401 925 52 18 26 148 156
14 932 928 866 785 273 533 512 595 317 912 .839 0 -1.45 .5 17 19 3.172 2.732 .315 .366 .24 921 52 18 26 157 165 -1.45
15 932 928 41 554 42 538 512 595 49 644 .175 0 .257 .75 0 1 .976 .837 1.024 1.195 .295 931 52 18 26 166 174 .257
16 929 928 6 516 530 520 604 600 0 1.2 0 0 931 52 18 26 175 183
17 933 928 486 537 528 613 565 .043 0 .375 0 0 0 .04 925 52 18 26 183 191
18 937 936 490 548 544 632 569 .076 0 1 0 0 0 .07 919 52 18 26 192 200
19 946 944 2 509 551 544 632 591 .066 0 .778 0 0 .057 931 52 18 26 201 209
20 959 952 18 524 558 552 641 609 0 .333 0 0 925 52 18 26 209 217

Total number of rows: 9984

Table truncated, full table size 1221 Kbytes.




Supplementary data files not provided
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