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Sample GSM2086 Query DataSets for GSM2086
Status Public on Jun 27, 2002
Title Blood B cells || lc8n076
Sample type RNA
 
Channel 1
Source name Lymphopool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name Blood B cells
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Lymphoma Classification
Subcategory: Normal lymphoid subsets
Scanning Software: ScanAlyze
Software version: 2.30
Lot batch = lc8n076
 
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
1 183 174 13 115 14 104 101 93 13 106 .305 0 -.011 .621 19 20 .929 1.008 1.077 .992 .205 990 225 79 96 48 65 -.011
2 177 166 285 842 741 133 101 93 683 776 .732 0 1.26 2.155 50 56 .385 .417 2.6 2.395 1.944 756 225 78 95 65 82 1.26
3 187 171 556 12803 12705 134 98 90 11705 11795 0 0 4.396 20.19 56 76 .044 .048 22.851 21.052 0 766 225 78 95 83 100 4.396
4 196 181 1351 730 632 108 98 90 582 673 .879 0 -1.214 .477 63 63 2.138 2.32 .468 .431 .403 746 225 78 95 100 117 -1.214
5 214 188 3951 20358 20253 159 105 97 18659 18755 0 0 2.24 4.724 71 83 .195 .212 5.126 4.723 0 746 225 78 95 118 135 2.24
6 211 185 504 1633 1523 162 110 101 1403 1504 .864 0 1.477 2.806 59 65 .331 .359 3.022 2.784 2.395 756 225 77 94 136 153 1.477
7 195 184 1441 2283 2174 114 109 100 2003 2103 .893 0 .475 1.462 60 62 .663 .719 1.509 1.39 1.344 756 225 77 94 153 170 .475
8 190 181 590 904 799 110 105 97 736 833 .852 0 .319 1.264 56 60 .738 .802 1.354 1.248 1.093 756 225 77 94 171 188 .319
9 190 177 773 1033 927 112 106 98 854 952 .864 0 .144 1.17 66 71 .834 .905 1.199 1.105 .996 731 225 77 94 188 205 .144
10 191 180 523 463 357 110 106 98 329 427 .844 0 -.669 .68 65 65 1.465 1.59 .683 .629 .554 735 225 77 94 206 223 -.669
11 188 178 1874 2585 2485 105 100 92 2289 2382 .863 0 .289 1.247 65 71 .754 .819 1.326 1.222 1.118 756 225 76 93 224 241 .289
12 187 178 983 2874 2775 110 99 91 2557 2648 .871 0 1.379 2.537 67 76 .354 .385 2.823 2.601 2.448 756 225 76 93 241 258 1.379
13 184 175 39 173 75 110 98 90 69 159 .642 0 .825 .756 23 28 .52 .564 1.923 1.772 1.092 756 225 76 93 259 276 .825
14 191 184 289 971 867 111 104 96 799 895 .844 0 1.467 2.51 49 56 .333 .362 3 2.764 2.293 731 225 76 93 276 293 1.467
15 193 185 571 14743 14636 114 107 99 13484 13582 0 0 4.562 18.77 55 72 .039 .042 25.632 23.614 0 771 225 75 92 294 311 4.562
16 194 180 1012 609 506 109 103 95 466 561 .833 0 -1.118 .443 52 51 2 2.171 .5 .461 .439 756 225 75 92 312 329 -1.118
17 184 171 175 762 662 107 100 92 610 702 .691 0 1.801 2.602 46 51 .264 .287 3.783 3.485 2.656 756 225 75 92 329 346 1.801
18 207 174 324 1173 1075 121 98 90 990 1081 .793 0 1.612 2.557 48 53 .301 .327 3.318 3.057 2.553 756 225 75 92 347 364 1.612
19 213 183 653 196 99 121 97 89 91 181 .864 0 -2.84 .359 19 15 6.596 7.16 .152 .14 .21 731 225 75 92 364 381 -2.84
20 213 185 105 10 114 95 88 9 97 .152 0 .579 12 19 0 .077 771 225 74 91 382 399

Total number of rows: 18432

Table truncated, full table size 2212 Kbytes.




Supplementary data files not provided
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