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Low-Rank and Sparse Matrix Decomposition for Genetic Interaction Data

文献类型：期刊论文

作者Wang, Yishu1; Yang, Dejie2; Deng, Minghua1,3,4
刊名BIOMED RESEARCH INTERNATIONAL
出版日期2015
页码11
ISSN号2314-6133
DOI10.1155/2015/573956
英文摘要Background. Epistatic miniarray profile (EMAP) studies have enabled the mapping of large-scale genetic interaction networks and generated large amounts of data in model organisms. One approach to analyze EMAP data is to identify gene modules with densely interacting genes. In addition, genetic interaction score (S score) reflects the degree of synergizing or mitigating effect of two mutants, which is also informative. Statistical approaches that exploit both modularity and the pairwise interactions may provide more insight into the underlying biology. However, the high missing rate in EMAP data hinders the development of such approaches. To address the above problem, we adopted the matrix decomposition methodology "low-rank and sparse decomposition" (LRSDec) to decompose EMAP data matrix into low-rank part and sparse part. Results. LRSDec has been demonstrated as an effective technique for analyzing EMAP data. We applied a synthetic dataset and an EMAP dataset studying RNA-related processes in Saccharomyces cerevisiae. Global views of the genetic cross talk between different RNA-related protein complexes and processes have been structured, and novel functions of genes have been predicted.
资助项目National Natural Science Foundation of China[31171262] ; National Natural Science Foundation of China[31471246] ; National Natural Science Foundation of China[31428012] ; National Key Basic Research Project of China[2015CB910303]
WOS研究方向Biotechnology & Applied Microbiology ; Research & Experimental Medicine
语种英语
WOS记录号WOS:000359224400001
出版者HINDAWI PUBLISHING CORPORATION
源URL[http://119.78.100.204/handle/2XEOYT63/9496]  
专题中国科学院计算技术研究所期刊论文_英文
通讯作者Deng, Minghua
作者单位1.Peking Univ, Ctr Quantitat Biol, Beijing 100871, Peoples R China
2.Chinese Acad Sci, Inst Comp Technol, Beijing 100190, Peoples R China
3.Peking Univ, Sch Math Sci, Beijing 100871, Peoples R China
4.Peking Univ, Ctr Stat Sci, Beijing 100871, Peoples R China
推荐引用方式
GB/T 7714		 Wang, Yishu,Yang, Dejie,Deng, Minghua. Low-Rank and Sparse Matrix Decomposition for Genetic Interaction Data[J]. BIOMED RESEARCH INTERNATIONAL,2015:11.
APA Wang, Yishu,Yang, Dejie,&Deng, Minghua.(2015).Low-Rank and Sparse Matrix Decomposition for Genetic Interaction Data.BIOMED RESEARCH INTERNATIONAL,11.
MLA Wang, Yishu,et al."Low-Rank and Sparse Matrix Decomposition for Genetic Interaction Data".BIOMED RESEARCH INTERNATIONAL (2015):11.

入库方式： OAI收割

来源：计算技术研究所

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