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Sample GSM424 Query DataSets for GSM424
Status Public on Jul 20, 2001
Title circadian rhythm time at 0,6 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 6 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 = R24
 
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
1 471 350 23969 27073 27073 52 0 44381 44381 .985 0 .889 1.065 80 92 .885 .54 1.13 1.852 1.077 1337 144 158 155 169 .889
2 485 331 4069 4442 4442 98 0 7281 7281 .938 0 .839 1.053 78 87 .916 .559 1.092 1.789 .988 1275 144 158 176 190 .839
3 481 331 4618 2038 2038 105 0 3340 3340 .931 0 -.467 .415 81 85 2.266 1.383 .441 .723 .416 1281 144 158 198 212 -.467
4 472 333 1326 1365 1363 79 2 3 2234 2237 .84 0 .753 .895 60 76 .973 .594 1.028 1.685 .824 1255 145 159 219 233 .753
5 523 322 23266 8091 8091 80 0 13263 13263 .979 0 -.811 .351 87 88 2.876 1.754 .348 .57 .342 1255 145 159 241 255 -.811
6 586 333 14247 5516 5516 93 0 9042 9042 .972 0 -.656 .385 85 89 2.583 1.576 .387 .635 .372 1234 145 159 262 276 -.656
7 550 366 5897 4549 4541 101 8 13 7444 7457 .952 0 .336 .786 83 87 1.299 .792 .77 1.262 .733 1261 145 159 283 297 .336
8 496 351 14193 8343 8343 82 0 13677 13677 .971 0 -.053 .597 91 87 1.701 1.038 .588 .964 .575 1276 145 159 305 319 -.053
9 596 348 914 694 685 122 9 14 1123 1137 .838 0 .297 .775 66 82 1.334 .814 .749 1.229 .518 1261 145 159 326 340 .297
10 608 368 1749 969 946 136 23 37 1551 1588 .835 0 -.173 .531 71 85 1.849 1.128 .541 .887 .45 1255 146 160 347 361 -.173
11 518 355 16557 8611 8593 91 18 29 14087 14116 .985 0 -.233 .517 83 91 1.927 1.175 .519 .851 .506 1255 146 160 369 383 -.233
12 533 387 3495 2251 2246 81 5 8 3682 3690 .919 0 .075 .637 73 85 1.556 .949 .643 1.054 .555 1234 146 160 390 404 .075
13 634 488 9310 6516 6483 106 33 54 10627 10681 .967 0 .191 .685 85 87 1.436 .876 .696 1.141 .665 1255 146 160 411 425 .191
14 723 559 2830 2741 2677 132 64 104 4389 4493 .842 0 .633 .894 85 90 1.057 .645 .946 1.551 .753 1262 146 160 433 447 .633
15 814 598 2082 1445 1384 128 61 100 2268 2368 .743 0 .123 .68 69 83 1.504 .918 .665 1.089 .377 1255 146 160 454 468 .123
16 893 670 7459 4767 4704 142 63 103 7711 7814 .924 0 .048 .654 83 92 1.586 .967 .631 1.034 .564 1281 146 160 475 489 .048
17 1016 646 6205 3816 3754 426 62 101 6154 6255 .894 0 -.012 .578 82 89 1.653 1.008 .605 .992 .642 1255 147 161 497 511 -.012
18 1033 595 44907 46042 45967 494 75 122 75356 75478 .995 0 .747 1.008 89 95 .977 .596 1.024 1.678 1.018 1255 147 161 518 532 .747
19 828 573 12544 7631 7569 209 62 101 12408 12509 .953 0 -.016 .605 82 89 1.657 1.011 .603 .989 .572 1255 147 161 540 554 -.016
20 818 631 6962 6013 5971 128 42 68 9789 9857 .947 0 .492 .82 87 93 1.166 .711 .858 1.406 .797 1351 147 161 561 575 .492

Total number of rows: 12800

Table truncated, full table size 1563 Kbytes.




Supplementary data files not provided
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