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Sample GSM1954 Query DataSets for GSM1954
Status Public on Jun 27, 2002
Title Tonsil
Sample type RNA
 
Channel 1
Source name Lymphopool
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name Tonsil
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Lymphoma Classification
Subcategory: Normal lymphoid subsets
Scanning Software: ScanAlyze
Software version: 2.30
Lot batch = lc4b008
 
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 GPL174
Series (1)
GSE60 Diffuse large B-cell lymphoma

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
1 449 432 59 453 58 415 395 658 97 755 .738 0 .717 1.172 14 16 1.017 .608 .983 1.644 .617 1174 156 96 110 106 120 .717
2 440 422 1468 1427 1036 412 391 651 1727 2378 .963 0 .234 .735 57 58 1.417 .85 .706 1.176 .671 966 156 97 111 123 137 .234
3 441 422 985 4139 3753 411 386 643 6255 6898 0 0 2.667 3.666 55 71 .262 .157 3.81 6.35 0 980 156 97 111 141 155 2.667
4 455 430 3009 2680 2283 420 397 661 3805 4466 .976 0 .339 .773 84 81 1.318 .791 .759 1.265 .732 966 156 98 112 158 172 .339
5 453 431 3522 5475 5085 420 390 650 8475 9125 0 0 1.267 1.438 90 95 .693 .416 1.444 2.406 0 980 156 98 112 176 190 1.267
6 426 400 994 1823 1462 394 361 601 2437 3038 .968 0 1.294 1.449 59 66 .68 .408 1.471 2.452 1.376 986 156 98 112 193 207 1.294
7 397 367 64 425 89 370 336 560 148 708 .867 0 1.209 1.125 14 21 .719 .432 1.391 2.313 .774 968 156 99 113 211 225 1.209
8 379 351 237 891 574 352 317 528 957 1485 .861 0 2.014 2.325 55 66 .413 .248 2.422 4.038 1.808 987 156 99 113 228 242 2.014
9 379 350 1043 834 531 343 303 505 885 1390 .95 0 -.237 .536 60 57 1.964 1.179 .509 .849 .472 958 156 100 114 246 260 -.237
10 388 350 2605 1254 955 332 299 498 1592 2090 .962 0 -.71 .367 86 82 2.728 1.636 .367 .611 .332 964 156 100 114 263 277 -.71
11 388 352 854 1031 720 341 311 518 1200 1718 .974 0 .491 .836 58 58 1.186 .712 .843 1.405 .829 980 156 100 114 281 295 .491
12 375 356 1909 2439 2113 346 326 543 3522 4065 .972 0 .884 1.122 71 74 .903 .542 1.107 1.845 1.029 964 156 101 115 298 312 .884
13 382 358 1801 3961 3627 359 334 556 6045 6601 0 0 1.747 1.989 64 71 .497 .298 2.014 3.356 0 980 156 101 115 316 330 1.747
14 390 357 1349 1951 1622 372 329 548 2703 3251 .968 0 1.003 1.223 75 80 .832 .499 1.202 2.004 1.146 985 156 101 115 333 347 1.003
15 381 352 1896 2443 2128 357 315 525 3546 4071 .96 0 .903 1.118 85 87 .891 .535 1.122 1.87 1.016 980 156 102 116 351 365 .903
16 389 348 1517 1035 727 349 308 513 1212 1725 .932 0 -.324 .499 71 72 2.087 1.252 .479 .799 .399 980 156 102 116 369 383 -.324
17 387 342 4115 2092 1787 345 305 508 2978 3486 0 0 -.467 .427 78 78 2.303 1.382 .434 .724 0 966 156 103 117 386 400 -.467
18 388 355 3110 2482 2173 349 309 515 3621 4136 .977 0 .219 .713 73 75 1.431 .859 .699 1.164 .646 980 156 103 117 404 418 .219
19 372 351 3006 2454 2151 337 303 505 3585 4090 .967 0 .254 .716 76 75 1.397 .838 .716 1.193 .678 986 156 103 117 421 435 .254
20 366 346 647 1297 1003 321 294 490 1671 2161 .948 0 1.369 1.599 66 73 .645 .387 1.55 2.583 1.405 968 156 104 118 439 453 1.369

Total number of rows: 9216

Table truncated, full table size 1125 Kbytes.




Supplementary data files not provided
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