國家衛生研究院 NHRI:Item 3990099045/2248

NHRI > Institute of Molecular and Genomic Medicine > Chi-Ying F. Huang(1998-2005) > Periodical Articles > Item 3990099045/2248

Please use this identifier to cite or link to this item: http://ir.nhri.org.tw/handle/3990099045/2248

Title:	A stochastic differential equation model for quantifying transcriptional regulatory network in Saccharomyces cerevisiae
Authors:	Chen, KC;Wang, TY;Tseng, HH;Huang, CYF;Kao, CY
Contributors:	Division of Molecular and Genomic Medicine
Abstract:	Motivation: The explosion of microarray studies has promised to shed light on the temporal expression patterns of thousands of genes simultaneously. However, available methods are far from adequate in efficiently extracting useful information to aid in a greater understanding of transcriptional regulatory network. Biological systems have been modeled as dynamic systems for a long history, such as genetic networks and cell regulatory network. This study evaluated if the stochastic differential equation (SIDE), which is prominent for modeling dynamic diffusion process originating from the irregular Brownian motion, can be applied in modeling the transcriptional regulatory network in Saccharomyces cerevisiae. Results: To model the time-continuous gene-expression datasets, a model of SIDE is applied to depict irregular patterns. Our goal is to fit a generalized linear model by combining putative regulators to estimate the transcriptional pattern of a target gene. Goodness-of-fit is evaluated by log-likelihood and Akaike Information Criterion. Moreover, estimations of the contribution of regulators and inference of transcriptional pattern are implemented by statistical approaches. Our SDE model is basic but the test results agree well with the observed dynamic expression patterns. It implies that advanced SDE model might be perfectly suited to portray transcriptional regulatory networks.
Keywords:	Biochemical Research Methods;Biotechnology & Applied Microbiology;Computer Science, Interdisciplinary Applications;Mathematical & Computational Biology;Statistics & Probability
Date:	2005-06-15
Relation:	Bioinformatics. 2005 Jun;21(12):2883-2890.
Link to:	http://dx.doi.org/10.1093/bioinformatics/bti415
JIF/Ranking 2023:	http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1367-4803&DestApp=IC2JCR
Cited Times(WOS):	https://www.webofscience.com/wos/woscc/full-record/WOS:000229934600015
Cited Times(Scopus):	http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=20844452570
Appears in Collections:	[Chi-Ying F. Huang(1998-2005)] Periodical Articles

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