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- 저자 : Xiguo Yuan (검색결과 3 건)
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Mutual information and linkage disequilibrium based SNP association study by grouping case‐control
Xiguo Yuan,Junying Zhang,Yue Wang 한국유전학회 2011 Genes & Genomics Vol.33 No.1
Two main reasons for the difficulties to search for susceptibility single‐nucleotide polymorphisms (SNPs) underlying genetic diseases are that the findings are not easy to be confirmed and the interactions between potential susceptibility SNPs are not clear. Many available association studies usually presented results with significance levels but did not illustrate the stability of the results. In some sense, their performances might be unclear in real practice. In this paper, we develop a novel method based on mutual information theory and linkage disequilibrium by grouping case‐control. Mutual information (MI)is used to test multiple SNPs in combining with disease status. Those SNPs contributing the maximum MI are selected as potential susceptibility SNPs. Linkage disequilibrium (LD) analysis is used to extend MI detected result so that both direct and indirect factors can be included in the final result. The purpose of case‐control grouping is to generate a number of data groups by randomly sampling from target samples. Each group is assumed to have almost the same number of individuals (cases and controls), and overlap is allowed among the groups. We apply the method to each data group, and then make comparisons and intersections between the results obtained from each of the groups so as to give the final result. We implement the method by continuously grouping until the final result reaches a stable state and a highly significance level. The experimental results indicate that our method to detect susceptibility SNPs in simulated and real data sets has shown remarkable success.
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SM-RCNV: a statistical method to detect recurrent copy number variations in sequenced samples
Yaoyao Li,Xiguo Yuan,Junying Zhang,Liying Yang,Jun Bai,Shan Jiang 한국유전학회 2019 Genes & Genomics Vol.41 No.5
Background Copy number variation (CNV) is an important form of genomic structural variation and is linked to dozens of human diseases. Using next-generation sequencing (NGS) data and developing computational methods to characterize such structural variants is significant for understanding the mechanisms of diseases. Objective The objective of this study is to develop a new statistical method of detection recurrent CNVs across multiple samples from genomic sequences. Methods A statistical method is carried out to detect recurrent CNVs, referred to as SM-RCNV. This method uses a statistic associated with each location by combining the frequency of variation at one location across whole samples and the correlation among consecutive locations. The weights of the frequency and correlation are trained using real datasets with known CNVs. P-value is assessed for each location on the genome by permutation testing. Results Compared with six peer methods, SM-RCNV outperforms the peer methods under receiver operating characteristic curves. SM-RCNV successfully identifies many consistent recurrent CNVs, most of which are known to be of biological significance and associated with diseased genes. The validation rate of SM-RCNV in the CEU call set and YRI call set with Database of Genomic Variants are 258/328 (79%) and (157/309) 51%, respectively. Conclusion SM-RCNV is a well-grounded statistical framework for detecting recurrent CNVs from multiple genomic sequences, providing valuable information to study genomes in human diseases. The source code is freely available at https ://sourc eforg e.net/proje cts/sm-rcnv/.
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Jing Li,Jian Wu,Xiguo Yuan,Xiaobo Li,Liefu Ai 제어·로봇·시스템학회 2017 International Journal of Control, Automation, and Vol.15 No.1
This paper considers the problem of the global finite-time stabilization for the high-order nonlinear systemswith unknown control directions. Due to the uncertainty of control directions, the paper analyzes all possibleconditions of the directions. The Lyapunov-based logic switching rule ensures that we can find the correct controldirections. The adaptive switching controller with a switching parameter which is to be tuned online guarantees thatthe derivative of Lyapunov function is less than a negative definite function and the closed-loop system is globallyfinite-time stable. The effectiveness of the proposed method is illustrated by an example.
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