A new smoothing model for analyzing array CGH data

Nha Nguyen; Heng Huang; Soontorn Oraintara; An Vo

doi:10.1109/BIBE.2007.4375683

A new smoothing model for analyzing array CGH data

Nha Nguyen, Heng Huang, Soontorn Oraintara, An Vo

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

3 Scopus citations

Abstract

Array based Comparative Genomic Hybridization (CGH) is a molecular cytogenetic method for the detection of chromosomal imbalances and it has been extensively used for studying copy number alterations in various cancer types. Our method captures both the intrinsic spatial change of genome hybridization intensities, and the physical distance between adjacent probes along a chromosome which are not uniform. In this paper, we introduce a dual-tree complex wavelet transform method with the bivariate shrinkage estimator into array CGH data smoothing study. We tested the proposed method on both simulated data and real data, and the results demonstrated superior performance of our method in comparison with extant methods.

Original language	English (US)
Title of host publication	Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
Pages	1027-1034
Number of pages	8
DOIs	https://doi.org/10.1109/BIBE.2007.4375683
State	Published - Dec 1 2007
Externally published	Yes
Event	7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE - Boston, MA, United States Duration: Jan 14 2007 → Jan 17 2007

Publication series

Name	Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE

Other

Other	7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE
Country/Territory	United States
City	Boston, MA
Period	1/14/07 → 1/17/07

ASJC Scopus subject areas

Biotechnology
Genetics
Bioengineering

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1109/BIBE.2007.4375683

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Nguyen, N., Huang, H., Oraintara, S., & Vo, A. (2007). A new smoothing model for analyzing array CGH data. In Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE (pp. 1027-1034). [4375683] (Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE). https://doi.org/10.1109/BIBE.2007.4375683

A new smoothing model for analyzing array CGH data. / Nguyen, Nha; Huang, Heng; Oraintara, Soontorn et al.

Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE. 2007. p. 1027-1034 4375683 (Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Nguyen, N, Huang, H, Oraintara, S & Vo, A 2007, A new smoothing model for analyzing array CGH data. in Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE., 4375683, Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE, pp. 1027-1034, 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE, Boston, MA, United States, 1/14/07. https://doi.org/10.1109/BIBE.2007.4375683

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AB - Array based Comparative Genomic Hybridization (CGH) is a molecular cytogenetic method for the detection of chromosomal imbalances and it has been extensively used for studying copy number alterations in various cancer types. Our method captures both the intrinsic spatial change of genome hybridization intensities, and the physical distance between adjacent probes along a chromosome which are not uniform. In this paper, we introduce a dual-tree complex wavelet transform method with the bivariate shrinkage estimator into array CGH data smoothing study. We tested the proposed method on both simulated data and real data, and the results demonstrated superior performance of our method in comparison with extant methods.

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A new smoothing model for analyzing array CGH data

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