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Book Chapter

Data Mining for Biologists

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http://pubman.mpdl.mpg.de/cone/persons/resource/persons84265

Tsuda,  K
Department Empirical Inference, Max Planck Institute for Biological Cybernetics, Max Planck Society;

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Citation

Tsuda, K. (2009). Data Mining for Biologists. In Biological Data Mining in Protein Interaction Networks (pp. 14-27). Hershey, PA, USA: Medical Information Science Reference.


Cite as: http://hdl.handle.net/11858/00-001M-0000-0013-C507-2
Abstract
In this tutorial chapter, we review basics about frequent pattern mining algorithms, including itemset mining, association rule mining and graph mining. These algorithms can find frequently appearing substructures in discrete data. They can discover structural motifs, for example, from mutation data, protein structures and chemical compounds. As they have been primarily used for business data, biological applications are not so common yet, but their potential impact would be large. Recent advances in computers including multicore machines and ever increasing memory capacity support the application of such methods to larger datasets. We explain technical aspects of the algorithms, but do not go into details. Current biological applications are summarized and possible future directions are given.