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Application of Penalized Mixed Model in Identification of Genes in Yeast Cell-Cycle Gene Expression Data

Author

Listed:
  • Mojtaba Ganjali

    (Department of Statistics, Shahid Beheshti University, Iran
    School of Biological Science, Institute for Research in Fundamental Sciences (IPM), Iran)

  • Taban Baghfalaki

    (Department of Statistics, Tarbiat Modares University, Iran
    School of Biological Science, Institute for Research in Fundamental Sciences (IPM), Iran)

Abstract

High-dimensional time-course gene expression data refer to time course data with a large number of covariates. In this status, variable selection is a popular approach for selecting important variables. In this paper, we review penalized likelihood mixed effects model for variable selection in high-dimensional time-course data. Then, the approach is used for variable selection in yeast cell-cycle gene expression data

Suggested Citation

  • Mojtaba Ganjali & Taban Baghfalaki, 2018. "Application of Penalized Mixed Model in Identification of Genes in Yeast Cell-Cycle Gene Expression Data," Biostatistics and Biometrics Open Access Journal, Juniper Publishers Inc., vol. 6(2), pages 38-41, April.
    • Handle: RePEc:adp:jbboaj:v:6:y:2018:i:2:p:38-41
    DOI: 10.19080/BBOAJ.2018.06.555682
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    References listed on IDEAS

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    1. Zou, Hui, 2006. "The Adaptive Lasso and Its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 101, pages 1418-1429, December.
    2. Hua Liang & Hulin Wu & Guohua Zou, 2008. "A note on conditional aic for linear mixed-effects models," Biometrika, Biometrika Trust, vol. 95(3), pages 773-778.
    3. Francis K. C. Hui & Samuel Müller & A. H. Welsh, 2017. "Joint Selection in Mixed Models using Regularized PQL," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 112(519), pages 1323-1333, July.
    4. Howard D. Bondell & Arun Krishna & Sujit K. Ghosh, 2010. "Joint Variable Selection for Fixed and Random Effects in Linear Mixed-Effects Models," Biometrics, The International Biometric Society, vol. 66(4), pages 1069-1077, December.
    5. Hui Zou & Trevor Hastie, 2005. "Addendum: Regularization and variable selection via the elastic net," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(5), pages 768-768, November.
    6. Florin Vaida & Suzette Blanchard, 2005. "Conditional Akaike information for mixed-effects models," Biometrika, Biometrika Trust, vol. 92(2), pages 351-370, June.
    7. Joseph G. Ibrahim & Hongtu Zhu & Ramon I. Garcia & Ruixin Guo, 2011. "Fixed and Random Effects Selection in Mixed Effects Models," Biometrics, The International Biometric Society, vol. 67(2), pages 495-503, June.
    8. Hui Zou & Trevor Hastie, 2005. "Regularization and variable selection via the elastic net," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(2), pages 301-320, April.
    9. Fan J. & Li R., 2001. "Variable Selection via Nonconcave Penalized Likelihood and its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 96, pages 1348-1360, December.
    10. Zhen Chen & David B. Dunson, 2003. "Random Effects Selection in Linear Mixed Models," Biometrics, The International Biometric Society, vol. 59(4), pages 762-769, December.
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