Detecting Periodically Expressed Genes based on Time-frequency Analysis and L-curve Method

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Title Detecting Periodically Expressed Genes based on Time-frequency Analysis and L-curve Method
Author Gan, Xiangchao; Liew, Alan Wee-Chung; Yan, Hong
Publication Title The 18th International Conference on Pattern Recognition
Editor YY Tan, SP Wang, G Lorette, DS Yeung, H Yan
Year Published 2006
Place of publication USA
Publisher IEEE Computer Society
Abstract In microarray experiments, gene expression profiles are often affected by biological properties, such as synchronization loss, and show some non-stationarity. Worse still, the microarray data usually suffers from missing values. The conventional spectrum-based methods, when used to identify a subset of genes that are periodically expressed, are degraded by these factors. In this paper, we use the Wigner-Ville distribution analysis and L-curve method for detection of periodically expressed genes. We provide a graphical exploratory device for assessment of the presence of periodically expressed genes. Then, we identify the subset of genes actually involved in the cell cycle using the L-curve method. The experiments on several widely used datasets show that our algorithm can effectively reduce the effect of non-stationarity and missing values problems.
Peer Reviewed Yes
Published Yes
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Copyright Statement Copyright 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.
ISBN 0-7695-2521-0
Conference name 18th International Conference on Pattern Recognition
Location Hong Kong
Date From 2006-08-20
Date To 2006-08-24
Date Accessioned 2007-06-08
Language en_AU
Research Centre Institute for Integrated and Intelligent Systems
Faculty Faculty of Science, Environment, Engineering and Technology
Subject PRE2009-Gene Expression; PRE2009-Signal Processing
WWW reference
Publication Type Conference Publications (Full Written Paper - Refereed)
Publication Type Code e1x

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