Statistical power of Fisher test for the detection of short periodic gene expression profiles

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

28 Scopus Citations
View graph of relations

Author(s)

  • Alan Wee-Chung Liew
  • Ngai-Fong Law
  • Xiao-Qin Cao
  • Hong Yan

Related Research Unit(s)

Detail(s)

Original languageEnglish
Pages (from-to)549-556
Journal / PublicationPattern Recognition
Volume42
Issue number4
Publication statusPublished - Apr 2009

Abstract

Many cellular processes exhibit periodic behaviors. Hence, one of the important tasks in gene expression data analysis is to detect subset of genes that exhibit cyclicity or periodicity in their gene expression time series profiles. Unfortunately, gene expression time series profiles are usually of very short length, with very few periods, irregularly sampled and are highly contaminated with noise. This makes the detection of periodic profiles a very challenging problem. Recently, a hypothesis testing method based on the Fisher g-statistic with correction for multiple testing has been proposed to detect periodic gene expression profiles. However, it was observed that the test is not reliable if the signal length is too short. In this paper, we performed extensive simulation study to investigate the statistical power of the test as a function of noise distribution, signal length, SNR, and the false discovery rate (FDR). We have found that the number of periodic profiles can be severely underestimated for short length signal. The findings indicate that caution needs to be exercised when interpreting the test result for very short length signals. © 2008 Elsevier Ltd. All rights reserved.

Research Area(s)

  • Fisher exact test, g-Statistic, Gene expression profiles, Periodicity detection, Short signal

Citation Format(s)

Statistical power of Fisher test for the detection of short periodic gene expression profiles. / Liew, Alan Wee-Chung; Law, Ngai-Fong; Cao, Xiao-Qin et al.
In: Pattern Recognition, Vol. 42, No. 4, 04.2009, p. 549-556.

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review