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Sample GSM2057 Query DataSets for GSM2057
Status Public on Jun 27, 2002
Title DLCL-0004
Sample type RNA
 
Channel 1
Source name Lymphopool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name DLCL-0004
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Lymphoma Classification
Subcategory: Diffuse Large B-Cell Lymphoma
Scanning Software: ScanAlyze
Software version: 2.30
Lot batch = lc8n128
 
Submission date Jun 18, 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 GPL176
Series (2)
GSE60 Diffuse large B-cell lymphoma
GSE3211 Relation of Gene Expression Phenotype to Immunoglobulin Mutation Genotype in B Cell Chronic Lymphocytic Leukemia

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
1 126 101 111 2 175 109 79 1 80 .188 -100 .884 12 7 0 .127 1129 177 72 87 62 77
2 163 116 110 213 121 87 -8 79 .188 -100 1.176 5 2 0 .148 919 177 71 86 79 94
3 156 122 18 136 8 169 128 92 6 98 .511 -100 .569 22 10 2.25 3.122 .444 .32 .272 906 177 71 86 97 112 -1.643
4 143 118 24 123 176 127 92 -3 89 .302 -100 .325 23 5 .115 919 177 70 85 114 129
5 152 118 5 112 169 114 82 -1 81 .354 -100 .476 18 7 .193 919 177 70 85 132 147
6 164 129 100 150 113 81 -9 72 .216 -100 .447 5 1 0 .113 928 177 69 84 150 165
7 166 123 104 144 111 80 -5 75 .394 -100 .714 6 5 0 .28 906 177 69 84 167 182
8 203 113 3 121 10 183 111 80 7 87 .289 -100 .84 15 11 .3 .416 3.333 2.402 .208 909 177 69 84 185 200 1.264
9 196 104 11 116 6 180 110 79 4 84 .36 -100 .537 22 8 1.833 2.544 .545 .393 .215 928 177 68 83 203 218 -1.347
10 111 97 206 464 363 112 101 73 262 334 .951 -100 1.459 39 42 .567 .788 1.762 1.27 1.543 906 177 68 83 220 235 .345
11 118 101 4145 5219 5119 129 100 72 3689 3761 0 0 -.168 1.218 74 72 .81 1.124 1.235 .89 0 932 177 67 82 238 253 -.168
12 135 103 2033 4101 3999 149 102 73 2882 2955 0 0 .503 1.894 66 69 .508 .706 1.967 1.417 0 915 177 67 82 256 271 .503
13 187 107 153 49 143 104 75 35 110 .423 -100 1.38 14 16 0 1.93 919 177 66 81 273 288
14 219 117 1541 2271 2164 153 107 77 1559 1636 .938 0 .017 1.361 72 77 .712 .988 1.404 1.012 1.327 919 177 66 81 291 306 .017
15 162 110 95 140 101 73 -4 68 .084 -100 .647 11 3 0 .044 906 177 66 81 309 324
16 119 102 29 108 12 105 96 69 9 78 .112 -100 .559 31 12 2.417 3.354 .414 .298 .052 919 177 65 80 326 341 -1.746
17 108 100 20 115 15 104 100 72 11 83 .66 -100 .569 23 7 1.333 1.85 .75 .54 .714 919 177 65 80 344 359 -.888
18 109 102 12 106 113 106 76 0 76 .374 -100 .667 17 7 0 .357 928 177 64 79 362 377
19 104 98 11 106 7 106 99 71 5 76 .263 -100 .667 22 11 1.571 2.181 .636 .459 .176 906 177 64 79 379 394 -1.125
20 99 93 3 87 97 95 68 -6 63 .131 -100 .392 18 3 .074 896 177 64 79 397 412

Total number of rows: 18432

Table truncated, full table size 2177 Kbytes.




Supplementary data files not provided
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