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Sample GSM428 Query DataSets for GSM428
Status Public on Jul 20, 2001
Title circadian rhythm time at 0,6 hours
Sample type RNA
 
Channel 1
Source name time at 6 hours
Organism Arabidopsis thaliana
Extracted molecule total RNA
 
Channel 2
Source name time at 0 hours
Organism Arabidopsis thaliana
Extracted molecule total RNA
 
 
Description Category: Development
Subcategory: Rhythm
Scanning Software: ScanAlyze
Software version: 2.33
Scanning parameters:
Keywords = circadian rhythm
Lot batch = R1
 
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
1 114 41 9563 18304 18136 324 168 65 7029 7094 0 0 -.444 1.885 96 96 .527 1.361 1.896 .735 0 1371 72 86 70 84 -.444
2 113 36 1277 2045 1891 323 154 59 733 792 .468 0 -.801 1.539 91 89 .675 1.742 1.481 .574 .65 1281 72 86 92 106 -.801
3 97 30 300 1057 902 236 155 60 349 409 .147 0 .218 3.092 84 93 .333 .86 3.007 1.163 .309 1261 72 86 113 127 .218
4 88 27 273 487 338 229 149 57 131 188 .319 0 -1.059 1.497 75 69 .808 2.084 1.238 .48 .388 1281 72 86 134 148 -1.059
5 90 28 829 4022 3884 217 138 53 1505 1558 .606 0 .86 5.151 88 90 .213 .551 4.685 1.815 2.23 1281 72 86 156 170 .86
6 95 30 888 3698 3554 225 144 55 1378 1433 .486 0 .634 4.016 92 92 .25 .644 4.002 1.552 1.504 1261 72 86 177 191 .634
7 96 28 411 1315 1170 251 145 56 453 509 .434 0 .14 3.017 83 83 .351 .907 2.847 1.102 .979 1255 73 87 198 212 .14
8 94 26 520 1999 1857 276 142 55 719 774 .468 0 .467 3.759 85 83 .28 .723 3.571 1.383 1.315 1255 73 87 220 234 .467
9 91 25 112 313 186 248 127 49 72 121 .012 0 -.637 2.538 62 49 .602 1.556 1.661 .643 .032 1234 73 87 241 255 -.637
10 86 26 163 460 353 197 107 41 137 178 .155 0 -.251 1.879 69 72 .462 1.19 2.166 .84 .326 1234 73 87 262 276 -.251
11 94 27 764 2745 2648 239 97 37 1026 1063 .621 0 .425 3.547 81 85 .289 .745 3.466 1.343 1.845 1255 73 87 283 297 .425
12 96 27 133 394 297 231 97 37 115 152 .1 0 -.21 2.5 66 69 .448 1.157 2.233 .865 .19 1255 73 87 305 319 -.21
13 142 27 452 1104 1009 232 95 36 391 427 .209 0 -.209 2.503 82 85 .448 1.156 2.232 .865 .375 1234 73 87 326 340 -.209
14 143 29 173 379 280 292 99 38 108 146 .153 0 -.68 1.544 72 66 .618 1.602 1.618 .624 .259 1255 73 87 347 361 -.68
15 88 29 129 518 408 189 110 42 158 200 0 .293 3.135 67 72 .316 .816 3.163 1.225 1255 73 87 369 383 .293
16 87 30 412 907 810 181 97 37 314 351 .39 0 -.392 2.161 89 85 .509 1.312 1.966 .762 .702 1234 73 87 390 404 -.392
17 119 29 299 778 682 249 96 37 264 301 .313 0 -.18 2.651 78 85 .438 1.133 2.281 .883 .518 1255 73 87 411 425 -.18
18 131 30 8920 16069 15968 287 101 39 6189 6228 0 0 -.527 1.763 93 94 .559 1.441 1.79 .694 0 1255 73 87 433 447 -.527
19 104 30 938 2449 2345 203 104 40 909 949 .468 0 -.045 2.735 92 92 .4 1.032 2.5 .969 .985 1234 73 87 454 468 -.045
20 91 26 666 960 859 187 101 39 333 372 .385 0 -1 1.294 93 91 .775 2 1.29 .5 .524 1351 73 87 475 489 -1

Total number of rows: 12800

Table truncated, full table size 1516 Kbytes.




Supplementary data files not provided
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