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Sample GSM430 Query DataSets for GSM430
Status Public on Jul 20, 2001
Title circadian rhythm time at 18,0
Sample type RNA
 
Channel 1
Source name time at 18 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 = R3
 
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
1 233 141 20410 32843 32604 343 239 134 18317 18451 0 0 -.156 1.573 88 87 .626 1.114 1.597 .897 0 1351 70 84 123 137 -.156
2 235 145 1673 2471 2229 359 242 135 1253 1388 .686 0 -.417 1.361 80 84 .751 1.335 1.332 .749 .893 1276 70 84 145 159 -.417
3 218 125 975 1859 1635 318 224 125 919 1044 .588 0 -.085 1.675 80 82 .596 1.061 1.677 .943 .839 1241 71 85 166 180 -.085
4 226 135 491 832 591 333 241 135 332 467 .649 0 -.565 1.262 71 62 .831 1.479 1.204 .676 .95 1248 71 85 187 201 -.565
5 235 145 2608 5740 5499 337 241 135 3089 3224 0 0 .244 2.23 83 87 .474 .844 2.109 1.184 0 1262 71 85 209 223 .244
6 242 149 2911 5756 5516 343 240 134 3099 3233 0 0 .09 1.729 91 89 .528 .939 1.895 1.065 0 1262 71 85 230 244 .09
7 245 152 1491 2751 2511 343 240 134 1411 1545 .794 0 -.08 1.657 77 81 .594 1.057 1.684 .946 1.321 1255 72 86 251 265 -.08
8 243 159 1598 4232 4016 304 216 121 2256 2377 .711 0 .497 2.461 84 86 .398 .708 2.513 1.412 1.613 1262 72 86 273 287 .497
9 262 157 577 514 315 292 199 111 177 288 0 -1.705 .912 69 60 1.832 3.26 .546 .307 1269 72 86 294 308 -1.705
10 289 159 534 802 596 332 206 115 335 450 .117 0 -.673 1.148 80 75 .896 1.594 1.116 .627 .139 1255 73 87 316 330 -.673
11 313 151 2083 4927 4708 348 219 123 2644 2767 0 0 .344 2.556 80 81 .442 .788 2.26 1.269 0 1248 73 87 337 351 .344
12 290 144 599 1082 889 316 193 108 499 607 .439 0 -.264 1.365 75 83 .674 1.2 1.484 .833 .539 1269 73 87 358 372 -.264
13 226 135 1438 2135 1957 292 178 100 1099 1199 .591 0 -.388 1.305 83 88 .735 1.308 1.361 .764 .775 1255 74 88 380 394 -.388
14 211 127 774 999 849 248 150 84 477 561 .564 0 -.698 1.159 78 82 .912 1.623 1.097 .616 .595 1248 74 88 401 415 -.698
15 199 114 449 907 781 227 126 70 439 509 .373 0 -.032 1.899 80 83 .575 1.023 1.739 .978 .555 1269 74 88 422 436 -.032
16 218 125 873 2041 1917 247 124 69 1077 1146 .577 0 .303 2.018 79 85 .455 .811 2.196 1.234 1.181 1255 75 89 444 458 .303
17 235 131 1157 2328 2203 248 125 70 1237 1307 .649 0 .096 2.098 87 88 .525 .935 1.904 1.069 1.092 1248 75 89 465 479 .096
18 244 129 19590 33843 33718 253 125 70 18942 19012 0 0 -.049 1.767 95 96 .581 1.034 1.721 .967 0 1269 75 89 486 500 -.049
19 220 113 3081 5662 5546 237 116 65 3115 3180 0 0 .016 1.812 92 89 .556 .989 1.8 1.011 0 1255 76 90 508 522 .016
20 198 103 2084 3084 2989 202 95 53 1679 1732 .657 0 -.312 1.333 91 95 .697 1.241 1.434 .806 .803 1358 76 90 529 543 -.312

Total number of rows: 12800

Table truncated, full table size 1545 Kbytes.




Supplementary data files not provided
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