國家衛生研究院 NHRI:Item 3990099045/10546
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    Please use this identifier to cite or link to this item: http://ir.nhri.org.tw/handle/3990099045/10546


    Title: TSGSIS: A high-dimensional grouped variable selection approach for detection of whole-genome SNP-SNP interactions
    Authors: Fang, YH;Wang, JH;Hsiung, CA
    Contributors: Division of Biostatistics and Bioinformatics
    Abstract: Motivation: Identification of single nucleotide polymorphism (SNP) interactions is an important and challenging topic in genome-wide association studies (GWAS). Many approaches have been applied to detecting whole-genome interactions. However, these approaches to interaction analysis tend to miss causal interaction effects when the individual marginal effects are uncorrelated to trait, while their interaction effects are highly associated with the trait. Results: A grouped variable selection technique, called two-stage grouped sure independence screening (TS-GSIS), is developed to study interactions that may not have marginal effects. The proposed TS-GSIS is shown to be very helpful in identifying not only causal SNP effects that are uncorrelated to trait but also their corresponding SNP-SNP interaction effects. The benefit of TS-GSIS are gaining detection of interaction effects by taking the joint information among the SNPs and determining the size of candidate sets in the model. Simulation studies under various scenarios are performed to compare performance of TS-GSIS and current approaches. We also apply our approach to a real rheumatoid arthritis (RA) data set. Both the simulation and real data studies show that the TS-GSIS performs very well in detecting SNP-SNP interactions. Availability and Implementation: R-package is delivered through CRAN and is available at.
    Date: 2017-11
    Relation: Bioinformatics. 2017 Nov;33(22):3595-3602.
    Link to: http://dx.doi.org/10.1093/bioinformatics/btx409
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1367-4803&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000415074800011
    Cited Times(Scopus): https://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=85034437967
    Appears in Collections:[Chao A. Hsiung] Periodical Articles

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