Identification of PE Genes in Cell Cycle
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This note is based on Fan, X., Pyne, S., & Liu, J. S. (2010). Bayesian meta-analysis for identifying periodically expressed genes in fission yeast cell cycle. The Annals of Applied Statistics, 4(2), 988–1013.
Abstract
Goal
Identify genes with periodic expression during the cell cycle from genome-wide microarray time series data.
Problem
- Lack of rigorous modeling of periodic expression
- Lack of a comprehensive model for integrating information across genes and experiments.
Proposal
a Bayesian model to integrate multiple independent microarray data sets from three recent genome-wide cell cycle studies on fission yeast.
a hierarchical model was used for data integration
a novel MH group move to facilitate an efficient Monte Carlo sampling
Result
more than 40% of the genes in fission yeast are significantly periodically expressed, calls for a reconsideration of the periodically expressed gene detection problem.
Introduction
- Periodically Expressed (PE) genes
- APeriodically Expressed (APE) genes
Identification of PE genes is important:
- the need to understand the different mechanisms underlying these genes’ involvements in the cell cycle processes
- the biological links between cell cycle control and many diseases such as cancer.