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Sample GSM2112 Query DataSets for GSM2112
Status Public on Jun 27, 2002
Title HT-29___CL4001__COLON
Sample type RNA
 
Channel 1
Source name Reference_Pool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name HT-29___CL4001__COLON
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Cell-line
Subcategory: Pharmacogenomics
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = dtp2728
 
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 1326 1328 24 1270 1318 1320 1466 1411 .114 0 .279 1 0 .092 967 52 10 18 68 76
2 1307 1304 50 1248 1281 1272 1413 1386 .448 0 .84 0 3 .799 798 52 9 17 76 84
3 1279 1280 1125 1224 1208 1342 1250 .074 0 .2 0 0 0 .083 658 52 9 17 85 93
4 1261 1256 35 1110 1181 1176 1306 1233 .053 0 .6 0 0 .054 664 52 9 17 94 102
5 1241 1240 30 1102 1143 1136 1262 1224 .148 0 .296 0 0 .156 664 52 9 17 103 111
6 1244 1240 10 1043 1126 1112 1235 1158 .089 0 .091 0 0 .094 658 52 9 17 111 119
7 1223 1216 964 1097 1080 1200 1071 .164 0 .286 0 0 0 .177 658 52 9 17 120 128
8 1208 1200 27 985 1076 1056 1173 1094 .132 0 .6 0 0 .129 672 52 9 17 129 137
9 1195 1184 17 982 1065 1048 1164 1091 .162 0 .875 0 0 .157 664 52 9 17 138 146
10 1187 1176 137 1094 46 1058 1048 1164 51 1215 .192 0 -1.426 .6 0 0 2.978 2.686 .336 .372 .163 658 52 9 17 146 154 -1.426
11 1163 1152 43 899 1038 1024 1137 998 .054 0 .25 0 0 .069 658 52 9 17 155 163
12 1146 1136 39 923 1017 1000 1111 1025 .085 0 .1 0 0 .101 664 52 9 17 164 172
13 1133 1128 37 897 1008 984 1093 996 .055 0 .571 0 0 .15 664 52 9 17 173 181
14 1118 1112 829 985 960 1066 921 .245 0 .467 0 0 0 .635 664 52 9 17 182 190
15 1113 1104 57 901 994 952 1057 1001 .478 0 1 0 0 1.337 658 52 9 17 190 198
16 1103 1096 3 878 977 936 1040 975 .54 0 .7 0 0 1.562 658 52 9 17 199 207
17 1100 1088 59 906 947 920 1022 1006 .526 0 1 0 1 1.285 664 52 9 17 208 216
18 1096 1088 28 970 50 940 920 1022 55 1077 .4 0 .974 1 1 5 .56 .509 1.786 1.964 1.335 656 52 9 17 217 225 .974
19 1086 1088 774 909 904 1004 860 .237 0 1.2 0 0 0 .317 646 52 9 17 225 233
20 1082 1080 1 792 906 896 995 880 .142 0 .9 0 0 .19 642 52 9 17 234 242

Total number of rows: 9984

Table truncated, full table size 1208 Kbytes.




Supplementary data files not provided
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