Power Boosts for Cluster Tests
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Gene cluster significance tests that are based on the number of genes in a cluster in two genomes, and how compactly they are distributed, but not their order, may be made more powerful by the addition of a test component that focuses solely on the similarity of the ordering of the common genes in the clusters in the two genomes. Here we suggest four such tests, compare them, and investigate one of them, the maximum adjacency disruption criterion, in some detail, analytically and through simulation.
KeywordsGene Cluster Critical Region Gene Order Valid Cluster Integer Sequence
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- 1.Calabrese, P.P., Chakravarty, S., Vision, T.J.: Fast identification and statistical evaluation of segmental homologies in comparative maps. Bioinformatics 19, i74–i80 (2003)Google Scholar
- 4.Hoberman, R., Sankoff, D., Durand, D.: The statistical analysis of spatially clustered genes under the maximum gap criterion. Journal of Computational Biology (2005) (in press)Google Scholar
- 6.Sankoff, D., El-Mabrouk, N.: Genome rearrangement. In: Jiang, T., Smith, T., Xu, Y., Zhang, M. (eds.) Current Topics in Computational Biology, pp. 135–155. MIT Press, Cambridge (2002)Google Scholar
- 7.Sloane, N.J.A.: The On-Line Encyclopedia of Integer Sequences (2005), http://www.research.att.com/~njas/sequences/