Team:Nevada/Interpolated Data
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Interpolation Method
Natural cubic splines were made based on the four time points for each gene. This produced 3 splines per gene: one for the interval from 0 to 3 hours, the second from 3 to 6 hours and a final one from 6 to 24 hours. For all genes, the final spline was also used to extrapolate out to 30 hours, in order to get a sense of whether or not some of these genes may have a delayed response to freezing. 16 time points were taken from the 30-hour interpolated/extrapolated data at 2 hour intervals to produce this data set, i.e. ( t0 = 0 hours, t1 = 2 hours, t2 = 4 hours...t15 = 30 hours ).
Interpolated Data Set
Raw Data | ICE1 | DREB1A | DREB1B | DREB1C | rd29A | ZAT6 | RAP2.1 | RAP2.6 |
t0 | 1358.1 | 96.6 | 24.5 | 69.4 | 1509.2 | 145.3 | 100.4 | 58.5 |
t1 | 1450.6 | 4600.5 | 3748.3 | 9051.6 | 2125.8 | 455.4 | 78.4 | 58.2 |
t2 | 1515 | 6617.4 | 5072.8 | 12724.1 | 5330.4 | 965.3 | 166.6 | 55.8 |
t3 | 1547.9 | 6181.2 | 4099 | 11249.3 | 10644.4 | 1620.6 | 357.8 | 52.3 |
t4 | 1566.7 | 5400.5 | 2970.9 | 9273.8 | 15161.9 | 2168.8 | 549.6 | 51.6 |
t5 | 1576.1 | 4709.9 | 2112.2 | 7731.3 | 18402.6 | 2571.8 | 722.5 | 53.9 |
t6 | 1577.2 | 4098.1 | 1489.2 | 6567.6 | 20526.3 | 2847.7 | 878.6 | 59 |
t7 | 1571.2 | 3554 | 1068.2 | 5728.6 | 21692.4 | 3014.6 | 1020.5 | 66.4 |
t8 | 1559.4 | 3066.1 | 815.6 | 5160.2 | 22060.6 | 3090.8 | 1150.5 | 75.8 |
t9 | 1542.8 | 2623.4 | 697.7 | 4808.4 | 21790.5 | 3094.3 | 1271.1 | 86.8 |
t10 | 1522.6 | 2214.4 | 680.8 | 4618.8 | 21041.6 | 3043.4 | 1384.4 | 98.9 |
t11 | 1500.2 | 1828 | 731.3 | 4537.6 | 19973.6 | 2956.1 | 1493.7 | 111.8 |
t12 | 1476.5 | 1452.8 | 815.4 | 4510.4 | 18745.9 | 2850.7 | 1599.3 | 125 |
t13 | 1452.8 | 1077.6 | 899.5 | 4483.2 | 17518.2 | 2745.3 | 1705.5 | 138.3 |
t14 | 1430.4 | 691.2 | 950 | 4402 | 16450.2 | 2658 | 1814.2 | 151.1 |
t15 | 1410.2 | 282.2 | 933.1 | 4212.4 | 15701.3 | 2607.1 | 1927.5 | 163.2 |
Log Base 2 of Normalized Ratios
Log2 Values | ICE1 | DREB1A | DREB1B | DREB1C | rd29A | ZAT6 | RAP2.1 | RAP2.6 |
t0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
t1 | 0.0951 | 5.5736 | 7.2573 | 7.0271 | 0.4942 | 1.6481 | -0.3568 | -0.0074 |
t2 | 0.1577 | 6.0981 | 7.6939 | 7.5184 | 1.8205 | 2.7319 | 0.7306 | -0.0682 |
t3 | 0.1887 | 5.9997 | 7.3863 | 7.3407 | 2.8182 | 3.4794 | 1.8334 | -0.1616 |
t4 | 0.2061 | 5.8049 | 6.9220 | 7.0621 | 3.3286 | 3.8998 | 2.4526 | -0.1811 |
t5 | 0.2148 | 5.6075 | 6.4298 | 6.7996 | 3.6081 | 4.1457 | 2.8472 | -0.1182 |
t6 | 0.2158 | 5.4068 | 5.9256 | 6.5643 | 3.7656 | 4.2927 | 3.1294 | 0.0123 |
t7 | 0.2103 | 5.2013 | 5.4463 | 6.3671 | 3.8453 | 4.3749 | 3.3454 | 0.1827 |
t8 | 0.1994 | 4.9882 | 5.0570 | 6.2163 | 3.8696 | 4.4109 | 3.5184 | 0.3738 |
t9 | 0.1840 | 4.7633 | 4.8318 | 6.1145 | 3.8518 | 4.4125 | 3.6622 | 0.5693 |
t10 | 0.1649 | 4.5187 | 4.7964 | 6.0564 | 3.8014 | 4.3886 | 3.7854 | 0.7575 |
t11 | 0.1436 | 4.2421 | 4.8996 | 6.0308 | 3.7262 | 4.3466 | 3.8951 | 0.9344 |
t12 | 0.1206 | 3.9107 | 5.0567 | 6.0222 | 3.6347 | 4.2942 | 3.9936 | 1.0954 |
t13 | 0.0972 | 3.4797 | 5.1983 | 6.0134 | 3.5370 | 4.2399 | 4.0864 | 1.2413 |
t14 | 0.0748 | 2.8390 | 5.2771 | 5.9871 | 3.4462 | 4.1932 | 4.1755 | 1.3690 |
t15 | 0.0543 | 1.5466 | 5.2512 | 5.9236 | 3.3790 | 4.1653 | 4.2629 | 1.4801 |
Boolean Values (Threshold of 3.5)
Boolean Values | ICE1 | DREB1A | DREB1B | DREB1C | RD29A | ZAT6 | RAP2.1 | RAP2.6 |
t0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
t1 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
t2 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
t3 | 0 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
t4 | 0 | 1 | 1 | 1 | 0 | 1 | 0 | 0 |
t5 | 0 | 1 | 1 | 1 | 1 | 1 | 0 | 0 |
t6 | 0 | 1 | 1 | 1 | 1 | 1 | 0 | 0 |
t7 | 0 | 1 | 1 | 1 | 1 | 1 | 0 | 0 |
t8 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 0 |
t9 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 0 |
t10 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 0 |
t11 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 0 |
t12 | 0 | 1 | 1 | 1 | 1 | 1 | 1 | 0 |
t13 | 0 | 0 | 1 | 1 | 1 | 1 | 1 | 0 |
t14 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 0 |
t15 | 0 | 0 | 1 | 1 | 0 | 1 | 1 | 0 |
Boolean Input Functions
For these functions, inputs were limited to 4 per gene. This, in conjunction with increasing the number of time points to take values from, dramatically reduced the number of Boolean input functions in all cases. However, ICE1 and RAP2.1 were still associated with billions of functions. Both of these genes share identical expression profiles ( "off" at all time points ) and identical input functions. For ICE1, this is due to post-transcriptional regulation and being active even though transcript levels remain constant under cold-stress. Because of the unwieldy number of input functions for ICE1 and RAP2.6, data has again been omitted for these genes.
Note also that DREB1A, ZAT6 and RAP2.1 do not appear in this list. This is because these genes had no possible inputs associated with them. This does not preclude them from appearing as inputs for the other five genes though.
Note One - True Boolean inputs were limited to those in which no more than 4 inputs fed into any one gene.