Wavelet Analysis in Current Cancer Genome Research: A Survey

Authors:
Tao Meng;Ahmed T. Soliman;Mei-Ling Shyu;Yimin Yang;Shu-Ching Chen;S. S. Iyengar;John Yordy;Puneeth Iyengar
Affiliations:
University of Miami, Coral Gables;University of Miami, Coral Gables;University of Miami, Coral Gables;Florida International University, Miami;Florida International University , Miami;Florida International University, Miami;University of Texas Southwestern Medical Center, Dallas;University of Texas Southwestern Medical Center, Dallas
Venue:
IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Year:
2013

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Abstract

With the rapid development of next generation sequencing technology, the amount of biological sequence data of the cancer genome increases exponentially, which calls for efficient and effective algorithms that may identify patterns hidden underneath the raw data that may distinguish cancer Achilles' heels. From a signal processing point of view, biological units of information, including DNA and protein sequences, have been viewed as one-dimensional signals. Therefore, researchers have been applying signal processing techniques to mine the potentially significant patterns within these sequences. More specifically, in recent years, wavelet transforms have become an important mathematical analysis tool, with a wide and ever increasing range of applications. The versatility of wavelet analytic techniques has forged new interdisciplinary bounds by offering common solutions to apparently diverse problems and providing a new unifying perspective on problems of cancer genome research. In this paper, we provide a survey of how wavelet analysis has been applied to cancer bioinformatics questions. Specifically, we discuss several approaches of representing the biological sequence data numerically and methods of using wavelet analysis on the numerical sequences.