Titlebook: Data Mining in Bioinformatics; Xindong Wu,Lakhmi Jain,Dennis Shasha Book 2005 Springer-Verlag London 2005 Alignment.Markov chain.XML.bioin

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Survey of Biodata Analysis from a Data Mining Perspectiveata. In this chapter, we present an overview of the data mining methods that help biodata analysis. Moreover, we outline some research problems that may motivate the further development of data mining tools for the analysis of various kinds of biological data.

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RNA Structure Comparison and Alignmentreaking activities are considered. The techniques provide a foundation for developing solutions to the hard problems concerning RNA tertiary structure comparisons. Some experimental results based on real-world RNA data are also reported.

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Scalable Index Structures for Biological Dataein structures, and pathways. After a brief discussion of sequences and structures, the focus shifts to pathways. Modeling of pathways along with their qualitative and quantitative characteristics is considered. Techniques that allow comparison and querying of static and dynamic aspects of pathways are presented.

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Gene Mapping by Pattern Discoveryhods and present a novel instance, HPM-G, suitable for directly analyzing phase-unknown genotype data. Obtaining haplotypes is more costly than obtaining phase-unknown genotypes, and our experiments show that although larger samples are needed with HPMG, it is still in many cases more cost-effective than analysis with haplotype data.

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