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Sample GSM2060 Query DataSets for GSM2060
Status Public on Jun 27, 2002
Title DLCL-0001
Sample type RNA
 
Channel 1
Source name Lymphopool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name DLCL-0001
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Lymphoma Classification
Subcategory: Diffuse Large B-Cell Lymphoma
Scanning Software: ScanAlyze
Software version: 2.31
Lot batch = lc8n134
 
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
1 525 513 59 1865 209 1688 1656 1925 243 2168 .513 -100 2.63 10 8 .282 .243 3.542 4.119 1.729 1016 225 47 64 77 94 2.042
2 518 485 36 1558 29 1646 1529 1777 34 1811 .294 -100 1.979 10 2 1.241 1.059 .806 .944 .697 720 225 47 64 95 112 -.082
3 530 488 60 1629 121 1606 1508 1753 141 1894 .463 -100 2.444 12 6 .496 .426 2.017 2.35 1.267 720 225 47 64 112 129 1.233
4 524 497 42 1713 141 1594 1572 1827 164 1991 .634 -100 2.606 12 8 .298 .256 3.357 3.905 2.562 746 225 47 64 130 147 1.965
5 520 479 51 1668 168 1591 1500 1744 195 1939 .71 -100 2.537 10 5 .304 .262 3.294 3.824 2.572 704 215 47 64 148 165 1.935
6 501 473 73 1665 212 1517 1453 1689 247 1936 .572 -100 2.923 16 9 .344 .296 2.904 3.384 1.829 716 225 47 64 163 180 1.759
7 501 484 44 1649 162 1531 1487 1729 188 1917 .294 -100 2.277 11 9 .272 .234 3.682 4.273 .884 781 225 47 64 181 198 2.095
8 493 485 15 1618 152 1505 1466 1704 177 1881 .529 -100 2.249 9 9 .099 .085 10.133 11.8 1.822 756 225 47 64 199 216 3.561
9 493 488 62 1650 224 1469 1426 1658 260 1918 .693 -100 3.432 11 8 .277 .238 3.613 4.194 2.004 756 225 47 64 216 233 2.068
10 537 479 250 2009 598 1491 1411 1640 696 2336 .746 -100 1.879 23 17 .418 .359 2.392 2.784 2.039 756 225 47 64 234 251 1.477
11 1008 480 4911 5866 4423 1922 1443 1677 5143 6820 0 0 .067 .89 42 42 1.11 .955 .901 1.047 0 756 225 47 64 251 268 .067
12 1032 466 998 2579 1156 1928 1423 1654 1344 2998 .938 0 .429 1.377 30 26 .863 .743 1.158 1.347 1.043 746 225 48 65 269 286 .429
13 536 451 67 1564 214 1489 1350 1569 249 1818 .647 0 1.894 2.354 10 7 .313 .269 3.194 3.716 1.955 720 225 48 65 287 304 1.894
14 574 433 1420 3322 2018 1445 1304 1516 2346 3862 .94 0 .724 1.473 44 45 .704 .605 1.421 1.652 1.287 720 225 48 65 304 321 .724
15 561 421 46 1482 216 1386 1266 1472 251 1723 .462 -100 2.813 8 8 .213 .183 4.696 5.457 2.068 731 225 48 65 322 339 2.448
16 389 389 90 1504 274 1098 1230 1430 318 1748 .372 -100 2.465 21 12 .328 .283 3.044 3.533 1.369 801 225 48 65 339 356 1.821
17 398 402 59 1359 111 1176 1248 1451 129 1580 .166 -100 2.167 16 6 .532 .457 1.881 2.186 .345 812 225 48 65 359 376 1.129
18 444 404 39 1408 164 1240 1244 1446 191 1637 .254 -100 2.302 11 8 .238 .204 4.205 4.897 .715 756 225 48 65 376 393 2.292
19 465 410 56 1421 144 1316 1277 1484 168 1652 .291 -100 2.32 13 8 .389 .333 2.571 3 .712 771 225 48 65 394 411 1.585
20 418 407 81 1413 172 1241 1241 1443 200 1643 .343 -100 2.236 22 8 .471 .405 2.123 2.469 .757 742 225 48 65 412 429 1.304

Total number of rows: 18432

Table truncated, full table size 2256 Kbytes.




Supplementary data files not provided
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