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Numerous genome-wide association studies (GWAS) have been performed in order to determine the susceptible loci of diseases. However, most diseases still cannot be explained by a single locus. Pathway-based methods address this problem by combining those small effects into groups of related genes or pathways. However, because pathway-based approaches consist of multiple steps, there is much room for...
This paper presents the extension of the quantitative target approximation model for simulating not only intonations but also stochastic behaviors in speech production. The simulation method first samples the initial F0 state from the initial F0 distribution. Then, to implement the communicative function, it predicts the pitch target parameters from the joint probability distribution of the initial...
Pathway-based analysis has been extended to perform disease classification of expression profiles. In this study, gene sets of related pathways of pancreatic cancer from KEGG are used for microarray-based pancreatic cancer classification by using pathway activity inferences with negatively correlated features. Pearson's correlation coefficient (PC) has been determined to be a suitable distance-based...
This paper proposes an effective method for identifying functional modules of the weighted gene co-expression network using a minimum spanning tree (MST) approach coupled with network neighborhood connectivity. The MST-based gene co-expression network was reconstructed to serve as the backbone of gene co-expression network. Highly connected hub genes were identified based on the connectivity of the...
Genome-wide case-control association study of complex disease requires effective and robust measurement of statistical difference of genetic markers, particularly single nucleotide polymorphisms (SNP). This paper presents a development of Odds Ratio Contour Analysis (ORCA) which is a method for identifying disease susceptible SNP from the odds ratio signal in genome-wide association study using a...
Odds ratio plays important roles in identifying and assessing disease susceptible SNPs in the case-control association study. However, the contour of odds ratio has too much variation to identify the disease susceptible DNA region. This paper proposes the odds ratio contour analysis (ORCA), a method for analyzing of odds ratio contour in genome-wide SNP association study. This method smoothes the...
This paper proposes a quantitative target approximation (qTA) model for simulating tone and intonation. Based on two theoretical models: the target approximation model (Y. Xu and Q.E. Wang, 2001) and the PENTA model (Y. Xu, 2005), the qTA model additionally incorporates several assumptions related to the underlying articulatory mechanisms, including (1) F0 production can be represented by a second-order...
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