Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform

Nha H. Nguyen, Heng Huang, Soontorn Oraintara, Yuhang Wang

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Citations (Scopus)

Abstract

Array-based comparative genomic hybridization (array CGH) is a highly efficient technique, allowing the simultaneous measurement of genomic DNA copy number at hundreds or thousands of loci and the reliable detection of local one-copy-level variations. Characterization of these DNA copy number changes is important for both the basic understanding of cancer and its diagnosis. In order to develop effective methods to identify aberration regions from array CGH data, many recent research works focus on both smoothing-based and segmentation-based data processing. In this paper, we propose to use the dual-tree complex wavelet transform to smooth the array CGH data. We demonstrate the effectiveness of our approach through theoretic and experimental exploration of a set of array CGH data, including both synthetic data and real data. The comparison results show that our method outperforms the previous approaches.

Original languageEnglish (US)
Title of host publicationProceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
Pages137-144
Number of pages8
DOIs
StatePublished - Dec 1 2007
Externally publishedYes
Event7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE - Boston, MA, United States
Duration: Jan 14 2007Jan 17 2007

Other

Other7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
CountryUnited States
CityBoston, MA
Period1/14/071/17/07

Fingerprint

Wavelet Analysis
Comparative Genomic Hybridization
Oligonucleotide Array Sequence Analysis
Wavelet transforms
DNA
Aberrations
DNA Copy Number Variations
Research
Neoplasms

ASJC Scopus subject areas

  • Biotechnology
  • Genetics
  • Bioengineering

Cite this

Nguyen, N. H., Huang, H., Oraintara, S., & Wang, Y. (2007). Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform. In Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE (pp. 137-144). [4375556] https://doi.org/10.1109/BIBE.2007.4375556

Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform. / Nguyen, Nha H.; Huang, Heng; Oraintara, Soontorn; Wang, Yuhang.

Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. 2007. p. 137-144 4375556.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Nguyen, NH, Huang, H, Oraintara, S & Wang, Y 2007, Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform. in Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE., 4375556, pp. 137-144, 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE, Boston, MA, United States, 1/14/07. https://doi.org/10.1109/BIBE.2007.4375556
Nguyen NH, Huang H, Oraintara S, Wang Y. Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform. In Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. 2007. p. 137-144. 4375556 https://doi.org/10.1109/BIBE.2007.4375556
Nguyen, Nha H. ; Huang, Heng ; Oraintara, Soontorn ; Wang, Yuhang. / Denoising of array-based DNA copy number data using the dual-tree complex wavelet transform. Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. 2007. pp. 137-144
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