Team:Nevada/Original Data

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Revision as of 22:20, 26 October 2010

Original Data Set

Data collected from microarray experiments performed by Jian-Kang Zhu, et al, and published on the Gene Expression Omnibus database (Zhu, et al).

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	1487.7	6041	4826.5	11809.1	3284.5	676.3	103.4	57.3
t2	1547.9	6181.2	4099	11249.3	10644.4	1620.6	357.8	52.3
t3	1476.5	1452.8	815.4	4510.4	18745.9	2850.7	1599.3	125

Log Base 2 of Normalized Ratios

Values were normalized to 1 at t0, and log base 2 values were taken.

Log2 Ratios	ICE1	DREB1A	DREB1B	DREB1C	RD29A	ZAT6	RAP2.1	RAP2.6
t0	0	0	0	0	0	0	0	0
t1	0.1315	5.9666	7.6221	7.4107	1.1219	2.2186	0.0425	-0.0299
t2	0.1887	5.9997	7.3863	7.3407	2.8182	3.4794	1.8334	-0.1616
t3	0.1206	3.9107	5.0567	6.0222	3.6347	4.2942	3.9936	1.0954

Boolean Values (Threshold of 2.0)

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	1	0	0
t2	0	1	1	1	1	1	0	0
t3	0	1	1	1	1	1	1	0

Boolean Input Functions

The number of Boolean inputs for this data amounted to 20 megabytes worth of text files, and thus, has been omitted. The extremely large number of inputs going into each gene indicated that the process needed some refinement to limit the number of possible interactions between these genes. This lead to the data interpolation and limiting the Boolean inputs to being no greater than 4 for each gene.

For some examples of Boolean Input Functions, please see the interpolated data page.

References

Zhu, J-K., Lee, B., Henderson, D. (2005) The Arabidopsis Cold-Responsive Transcriptome and Its Regulation by ICE1. Plant Cell. Vol. 17, Issue 11, p3155-3175.

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 == Log Base 2 of Normalized Ratios ==
+Values were normalized to 1 at t0, and log base 2 values were taken.
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