Wavelet analysis in current cancer genome research: A survey

Tao Meng, Ahmed T. Soliman, Mei-Ling Shyu, Yimin Yang, Shu Ching Chen, S. S. Iyengar, John S. Yordy, Puneeth Iyengar

Research output: Contribution to journalArticle

26 Citations (Scopus)

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.

Original languageEnglish
Article number6654125
Pages (from-to)1442-1459
Number of pages18
JournalIEEE/ACM Transactions on Computational Biology and Bioinformatics
Volume10
Issue number6
DOIs
StatePublished - Nov 1 2013

Fingerprint

Wavelet Analysis
Wavelet analysis
Cancer
Signal processing
Genome
Genes
Bioinformatics
Research
Wavelet transforms
Signal Processing
Neoplasms
DNA
Proteins
Protein Sequence
Computational Biology
Mathematical Analysis
DNA Sequence
Wavelet Transform
Sequencing
Wavelets

Keywords

  • Cancer genome
  • Driver mutation
  • Passenger mutation
  • Wavelet analysis

ASJC Scopus subject areas

  • Biotechnology
  • Genetics
  • Applied Mathematics
  • Medicine(all)

Cite this

Meng, T., Soliman, A. T., Shyu, M-L., Yang, Y., Chen, S. C., Iyengar, S. S., ... Iyengar, P. (2013). Wavelet analysis in current cancer genome research: A survey. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 10(6), 1442-1459. [6654125]. https://doi.org/10.1109/TCBB.2013.134

Wavelet analysis in current cancer genome research : A survey. / Meng, Tao; Soliman, Ahmed T.; Shyu, Mei-Ling; Yang, Yimin; Chen, Shu Ching; Iyengar, S. S.; Yordy, John S.; Iyengar, Puneeth.

In: IEEE/ACM Transactions on Computational Biology and Bioinformatics, Vol. 10, No. 6, 6654125, 01.11.2013, p. 1442-1459.

Research output: Contribution to journalArticle

Meng, T, Soliman, AT, Shyu, M-L, Yang, Y, Chen, SC, Iyengar, SS, Yordy, JS & Iyengar, P 2013, 'Wavelet analysis in current cancer genome research: A survey', IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no. 6, 6654125, pp. 1442-1459. https://doi.org/10.1109/TCBB.2013.134
Meng, Tao ; Soliman, Ahmed T. ; Shyu, Mei-Ling ; Yang, Yimin ; Chen, Shu Ching ; Iyengar, S. S. ; Yordy, John S. ; Iyengar, Puneeth. / Wavelet analysis in current cancer genome research : A survey. In: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2013 ; Vol. 10, No. 6. pp. 1442-1459.
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