The Korean Journal of Applied Statistics (응용통계연구)

The Korean Statistical Society (한국통계학회)
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Screening and Clustering for Time-course Yeast Microarray Gene Expression Data using Gaussian Process Regression

효모 마이크로어레이 유전자 발현데이터에 대한 가우시안 과정 회귀를 이용한 유전자 선별 및 군집화

  • Kim, Jaehee (Department of Statistics, Duksung Women's University) ;
  • Kim, Taehoun (Department of PrePharmMed, Duksung Women's University)
  • 김재희 (덕성여자대학교 정보통계학과) ;
  • 김태훈 (덕성여자대학교 프리팜메드학과)
  • Received : 2012.12.28
  • Accepted : 2013.04.26
  • Published : 2013.06.30
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Abstract

This article introduces Gaussian process regression and shows its application with time-course microarray gene expression data. Gene screening for yeast cell cycle microarray expression data is accomplished with a ratio of log marginal likelihood that uses Gaussian process regression with a squared exponential covariance kernel function. Gaussian process regression fitting with each gene is done and shown with the nine top ranking genes. With the screened data the Gaussian model-based clustering is done and its silhouette values are calculated for cluster validity.

본 연구에서는 가우시안 과정회귀방법을 소개하고 시계열 마이크로어레이 유전자 발현데이터에 대해 가우시안 과정회귀를 적용한 사례를 보이고자한다. 가우시안 과정회귀를 적합하여 로그 주변우도함수 비를 이용한 유전자를 선별방법에 대한 모의실험을 통해 민감도, 특이도, 위발견율 등을 계산하여 선별방법으로의 활용성을 보였다. 실제 효모세포주기 데이터에 대해 제곱지수공분산함수를 고려한 가우시안 과정회귀를 적합하여 로그 주변우도함수 비를 이용하여 차변화된 유전자를 선별한 후, 선별된 유전자들에 대해 가우시안 모형기반 군집화를 하고 실루엣 값으로 군집유효성을 보였다.

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References

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