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Sample GSM2096 Query DataSets for GSM2096
Status Public on Jun 27, 2002
Title MDA-N_CL5012__BREAST
Sample type RNA
 
Channel 1
Source name Reference_Pool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name MDA-N_CL5012__BREAST
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Cell-line
Subcategory: Pharmacogenomics
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = dtp2777
 
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 1154 1104 6 666 677 672 579 574 .25 0 1.571 0 0 .024 1049 52 12 20 61 69
2 1180 1104 11 649 663 664 572 559 .358 0 .474 0 0 .03 905 52 12 20 69 77
3 1178 1096 646 652 648 558 556 .416 0 .818 0 0 0 .032 773 52 12 20 78 86
4 1165 1080 637 644 640 551 549 .409 0 1.2 0 0 0 .03 767 52 12 20 87 95
5 1113 1072 623 638 632 544 537 .36 0 .4 0 0 0 .048 767 52 12 20 96 104
6 1092 1072 622 637 632 544 536 .327 0 1.143 0 0 0 .054 761 52 12 20 104 112
7 1070 1072 626 639 632 544 539 .129 0 2.333 0 0 0 .101 761 52 12 20 113 121
8 1255 1080 614 659 632 544 529 .829 0 1.2 0 0 0 .14 767 52 12 20 122 130
9 1256 1072 632 8 654 624 537 7 544 .831 0 1.5 0 0 0 .14 767 52 12 20 131 139
10 1264 1080 75 766 142 651 624 537 123 660 .787 0 .714 1.2 0 26 .528 .61 1.893 1.64 .142 761 52 12 20 139 147 .714
11 1267 1080 22 637 13 648 624 537 12 549 .826 0 -.874 .696 0 0 1.692 1.833 .591 .545 .141 761 52 12 20 148 156 -.874
12 1089 1080 22 611 624 624 537 526 .197 0 .368 0 0 .121 779 52 12 20 157 165
13 1094 1088 603 626 624 537 519 .064 0 .444 0 0 0 .036 767 52 12 20 166 174
14 1093 1088 641 17 625 624 537 15 552 .14 0 1.111 0 0 0 .07 767 52 12 20 175 183
15 1088 1080 632 8 628 624 537 7 544 .275 0 1 0 0 0 .147 761 52 12 20 183 191
16 1084 1072 615 625 624 537 530 .149 0 1 0 0 0 .089 761 52 12 20 192 200
17 1083 1072 600 621 616 531 517 .224 0 1.333 0 0 0 .126 767 52 12 20 201 209
18 1088 1072 5 629 5 626 624 537 5 542 .218 0 0 .444 0 0 1 1 1 1 .123 767 52 12 20 210 218 0
19 1084 1072 581 624 616 531 500 .221 0 1 0 0 0 .17 765 52 12 20 218 226
20 1089 1080 715 91 625 624 537 79 616 0 .727 0 1 0 769 52 12 20 227 235

Total number of rows: 9984

Table truncated, full table size 1220 Kbytes.




Supplementary data files not provided
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