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Sample GSM426 Query DataSets for GSM426
Status Public on Jul 20, 2001
Title circadian rhythm time at 0,12 biological
Sample type RNA
 
Channel 1
Source name time at 0 hours
Organism Arabidopsis thaliana
Extracted molecule total RNA
 
Channel 2
Source name time at 12 hours
Organism Arabidopsis thaliana
Extracted molecule total RNA
 
 
Description Category: Development
Subcategory: Rhythm
Scanning Software: ScanAlyze
Software version: 2.44
Scanning parameters:
Keywords = circadian rhythm
Lot batch = R36
 
Submission date Jul 20, 2001
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 GPL13
Series (1)
GSE4 Diurnal and Circadian-Regulated Genes in Arabidopsis

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
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 TOP BOT LEFT RIGHT UNF_VALUE
1 457 339 10140 20617 20397 348 220 184 17141 17325 .674 0 .757 1.817 83 91 .497 .592 2.012 1.69 1.361 1351 91 105 175 189 .757
2 521 394 1740 3333 3096 403 237 199 2601 2800 .605 0 .58 1.584 80 73 .562 .669 1.779 1.495 1.081 1281 91 105 196 210 .58
3 546 426 1681 2458 2231 377 227 190 1875 2065 .51 0 .158 1.225 75 83 .753 .897 1.327 1.115 .651 1255 92 106 218 232 .158
4 674 505 749 1238 966 429 272 228 812 1040 .156 0 .117 1.279 54 64 .775 .922 1.29 1.084 .129 1234 92 106 239 253 .117
5 753 603 851 2059 1746 460 313 263 1467 1730 .199 0 .786 1.909 66 76 .487 .58 2.052 1.724 .215 1255 92 106 260 274 .786
6 740 600 5082 5795 5451 458 344 289 4580 4869 .625 0 -.15 1.048 75 87 .932 1.11 1.073 .901 .638 1255 92 106 282 296 -.15
7 720 593 3852 6580 6197 484 383 321 5208 5529 .667 0 .435 1.558 79 87 .622 .74 1.609 1.352 .992 1234 92 106 303 317 .435
8 709 606 3733 4067 3673 499 394 331 3086 3417 .659 0 -.275 1.069 76 81 1.016 1.21 .984 .827 .655 1241 92 106 324 338 -.275
9 750 644 186 904 488 520 416 349 410 759 .127 0 1.14 1.524 33 57 .381 .454 2.624 2.204 .142 1255 92 106 345 359 1.14
10 819 671 275 1273 867 508 406 341 728 1069 .078 0 1.405 2.047 41 71 .317 .378 3.153 2.647 .056 1248 92 106 367 381 1.405
11 812 673 7314 9518 9116 506 402 337 7661 7998 .666 0 .067 1.37 75 85 .802 .955 1.246 1.047 .786 1234 92 106 388 402 .067
12 754 649 1341 2267 1850 516 417 350 1555 1905 .484 0 .214 1.208 67 75 .725 .862 1.38 1.16 .645 1255 92 106 409 423 .214
13 761 637 4226 7771 7346 538 425 357 6173 6530 .662 0 .547 1.601 76 80 .575 .685 1.738 1.461 1.155 1255 92 106 431 445 .547
14 1942 722 1035 1888 1431 1747 457 384 1202 1586 .607 0 .216 1.498 58 69 .723 .861 1.383 1.161 .616 1234 92 106 452 466 .216
15 1965 731 920 2078 1609 1711 469 394 1352 1746 .606 0 .555 1.564 58 71 .572 .68 1.749 1.47 .615 1255 92 106 473 487 .555
16 792 652 3579 3393 2984 511 409 343 2508 2851 .623 0 -.513 .755 72 83 1.199 1.427 .834 .701 .482 1255 92 106 495 509 -.513
17 686 575 2786 4789 4418 479 371 311 3713 4024 .551 0 .414 1.949 72 80 .631 .75 1.586 1.333 .828 1234 92 106 516 530 .414
18 701 577 27799 45846 45449 663 397 333 38193 38526 .609 0 .458 1.569 92 95 .612 .728 1.635 1.374 .94 1255 92 106 537 551 .458
19 743 630 2778 4568 4153 689 415 348 3490 3838 .516 0 .329 1.382 73 86 .669 .796 1.495 1.256 .831 1255 92 106 559 573 .329
20 764 676 5756 7889 7483 528 406 341 6288 6629 .687 0 .128 1.383 76 83 .769 .915 1.3 1.092 .905 1351 92 106 580 594 .128

Total number of rows: 12800

Table truncated, full table size 1605 Kbytes.




Supplementary data files not provided
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