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| Title: | Multiple peak alignment in sequential data analysis : a scale-space-based approach |
| Authors: | Yu, Weichuan
Li, Xiaoye
Liu, Junfeng
Wu, Baolin
Williams, Kenneth R.
Zhao, Hongyu |
| Keywords: | Biomarker discovery
Peak identification
Multiple peak alignment
Scale-space
Prior information
Energy minimization
Parameter optimization |
| Issue Date: | Sep-2006 |
| Citation: | IEEE/ACM transactions on computational biology and bioinformatics, vol. 3, no. 3, July-September 2006, p. 208-219 |
| Abstract: | In this paper, we address the multiple peak alignment problem in sequential data analysis with an approach based on the Gaussian scale-space theory. We assume that multiple sets of detected peaks are the observed samples of a set of common peaks. We also assume that the locations of the observed peaks follow unimodal distributions (e.g., normal distribution) with their means equal to the corresponding locations of the common peaks and variances reflecting the extension of their variations. Under these assumptions, we convert the problem of estimating locations of the unknown number of common peaks from multiple sets of detected peaks into a much simpler problem of searching for local maxima in the scale-space representation. The optimization of the scale parameter is achieved using an energy minimization approach. We compare our approach with a hierarchical clustering method using both simulated data and real mass spectrometry data. We also demonstrate the merit of extending the binary peak detection method (i.e., a candidate is considered either as a peak or as a nonpeak) with a quantitative scoring measure-based approach (i.e., we assign to each candidate a possibility of being a peak). |
| Rights: | © 2006 IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE. This material is presented to ensure timely dissemination of scholarly and technical work. Copyright and all rights therein are retained by authors or by other copyright holders. All persons copying this information are expected to adhere to the terms and constraints invoked by each author's copyright. In most cases, these works may not be reposted without the explicit permission of the copyright holder. |
| URI: | http://hdl.handle.net/1783.1/3042 |
| Appears in Collections: | ECE Journal/Magazine Articles
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