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基于大脑不同区域的阿尔茨海默症基因表达数据分析 被引量:2

Gene Expression Data Analysis of Alzheimer's Disease Based on Different Brain Areas
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摘要 提出了采用Tukey双权函数作为FastICA(Fast Independent Component Analysis)方法的非线性函数,对阿尔茨海默症(Alzheimer’s disease,AD)多个脑区域基因表达数据进行显著基因提取,揭示其基因表达调控关系.针对传统聚类方法基于全局聚类且只能将某个基因聚类到某一类的缺陷,改进的FastICA方法能够对基因表达数据进行快速有效的双向聚类,能够满足同一个基因可能参与不同信号传导通路的生物特性.同时考虑到人脑中海马区、内嗅皮质区、颞中回及视觉皮层区均与学习与记忆功能密切相关,将算法对多个脑区域进行基因表达调控综合分析.结果表明,大量炎症反应是AD致病的重要因素之一. An improved FastICA (Fast Independent Component Analysis) algorithm using Tukey biweight function as its nonlinear function was proposed to analyze significant genes and regulatory network of multi-brain areas of Alzheimer's disease (AD). To avoid the limitation of traditional clustering methods which group genes in only one class and based on the global similarities in their expression profiles, in this study, the improved biclustering method can identify the significant genes and gene regulatory modules of AD efficiently. According to the function of brain area, this method was applied to the AD brain samples of hippocampus (HIP), entorhinal cortex (EC), media temporal gyrus (MTG) and primary visual cortex respectively which was closely related to human learning and memory. The integrated biological analysis demonstrated that the identified inflammation processes in human brain played an important role in AD.
作者 孔薇 牟晓阳
出处 《上海交通大学学报》 EI CAS CSCD 北大核心 2013年第6期994-997,1002,共5页 Journal of Shanghai Jiaotong University
基金 国家自然科学基金项目(61271446) 上海市科委青年科技启明星计划(A类)项目(11QA1402900) 上海市教委科研创新项目(11YZ141)
关键词 微阵列基因表达数据 阿尔茨海默症 独立成分分析 基因调控网络 microarray gene expression data Alzheimer's disease independent component analysis gene regulatory network
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参考文献15

  • 1Zheng C H, Ng T Y, Zhang L. Tumor classification based on non-negative matrix factorization using gene expression data[J]. IEEE Transactions on Nanobio- science, 2011, 10(2) :86-93.
  • 2Wang X, Chen Y, Wang X, etal. Genetic regulatory network analysis for app based on genetical genomics approach[J]. Experimental Aging Research, 2010, 36 (1) :79-93.
  • 3Zhang L, Ju X, Cheng Y, etal. Identifying Tmem59 related gene regulatory network of mouse neural stem cell from a compendium of expression profiles[J]. BMC Systems Biology, 2011, 29(5):152-156.
  • 4Hori G, Inoue M, Nishimura S, et al. Blind gene classification based on ICA of microarray data[C]// 3rd International Conference on Independent Compo- nent Analysis and Signal Separation. San Diego, USA: University of California, 2001: 332-336.
  • 5Liebermeister W. Linear modes of gene expression determined by independent component analysis [J].Bioinformaties, 2002, 18(1): 51-60.
  • 6Yang X L, He Q. Weighted maximum margin criteri- on method: Application to proteomic peptide profile [C]//5th International Conference on Bioinformaties and Biomedical Engineering. Wuhan, China : ICBBE, 2011 : 1-4.
  • 7Hyvfirinen A. Fast and robust fixed-point algorithms for independent component analysis[J]. IEEE Trans- actions on Neural Networks, 1999, 10(3): 626-634.
  • 8Bashir S, Carter E M. Performance of high break down mixture discriminant analysis under different bi weight functions [J]. Communications in Statistics Simulation and Computation, 2007, 36 (1) : 177-183.
  • 9Wei K, Xiaoyang M, Qingzhou L, etal. Independent component analysis of Alzheimer's DNA microarray gene expression data [J]. Molecular Neurodegenera- tion, 2009, 4(5): 1-7.
  • 10Chinappetta P, Roubaud M C, Torresani B. Blind source separation and the analysis of microarray data [J]. Journal of Computational Biology, 2004, 11 (6):1090-1109.

二级参考文献21

  • 1Kazutoshi Takahashi,Shinya Yamanaka.Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factorsCell,2006.
  • 2Komarov PG;Komarova EA;Kondratov RV.A chemical inhibitor of p53 that protects mice from the side effects of cancer therapy,1999.
  • 3Pittenger MF,Martin BJ.Mesenchymal stem cells and their potential as cardiac therapeuticsCirculation Research,2004.
  • 4Qin H;Yu T;Qing T;Liu Y,Zhao Y,Cai J,Li J,Song Z,Qu X,Zhou P,Wu J,Ding M and Deng H.Regulation of apoptosis and differentiation by p53 in human embryonic stem cells,2007(08).
  • 5Doe,C.Q.Neural stem cells: balancing self-renewal with differentiationDevelopment,2008.
  • 6Michieli P;Chedid M;Lin D.Induction of WAF1/CIP1 by a p53-independent pathway,1994.
  • 7Lin T X;Chao C;Saito S.p53 induces differentiation of mouse embryonic stem cells by suppressing Nanog expression,2005(02).
  • 8Rosen ED,MacDougald OA.Adipocyte differentiation from the inside outNature Reviews Molecular Cell Biology,2006.
  • 9Tropel P,Noel D,Platet N,et al.Isolation and characterisation of mesenchymal stem cells from adult mouse bone marrowExperimental Cell Research,2004.
  • 10Reya T,Morrison SJ,Clarke MF,et al.Stem cells, cancer, and cancer stem cells. Nature . 2001

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