Gene Regulatory Network Inference using PLS-based Methods

	Gene Regulatory Network Inference using PLS-based Methods
	Shun Guo; Qingshan Jiang; Lifei Chen; Donghui Guo
刊名	BMC BIOINFORMATICS
	2016
文献子类	期刊论文
英文摘要	Background: Inferring the topology of gene regulatory networks (GRNs) from microarray gene expression data has many potential applications, such as identifying candidate drug targets and providing valuable insights into the biological processes. It remains a challenge due to the fact that the data is noisy and high dimensional, and there exists a large number of potential interactions. Results: We introduce an ensemble gene regulatory network inference method PLSNET, which decomposes the GRN inference problem with p genes into p subproblems and solves each of the subproblems by using Partial least squares (PLS) based feature selection algorithm. Then, a statistical technique is used to refine the predictions in our method. The proposed method was evaluated on the DREAM4 and DREAM5 benchmark datasets and achieved higher accuracy than the winners of those competitions and other state-of-the-art GRN inference methods. Conclusions: Superior accuracy achieved on different benchmark datasets, including both in silico and in vivo networks, shows that PLSNET reaches state-of-the-art performance. Keywords: Gene Regulatory Network inference, Gene expression data, Partial least squares (PLS), Ensemble
URL标识	查看原文
语种	英语
内容类型	期刊论文
源URL	[http://ir.siat.ac.cn:8080/handle/172644/12563]
专题	深圳先进技术研究院_数字所
作者单位	BMC BIOINFORMATICS
推荐引用方式 GB/T 7714	Shun Guo,Qingshan Jiang,Lifei Chen,et al. Gene Regulatory Network Inference using PLS-based Methods[J]. BMC BIOINFORMATICS,2016.
APA	Shun Guo,Qingshan Jiang,Lifei Chen,&Donghui Guo.(2016).Gene Regulatory Network Inference using PLS-based Methods.BMC BIOINFORMATICS.
MLA	Shun Guo,et al."Gene Regulatory Network Inference using PLS-based Methods".BMC BIOINFORMATICS (2016).