Bulletin of the Computational Statistics of Japan

[title in Japanese]

Article type: Cover
2012 Volume 25 Issue 1 Pages Cover1-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_Cover1

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[title in Japanese]

Article type: Appendix
2012 Volume 25 Issue 1 Pages App1-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_App1

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[title in Japanese]

Article type: Index
2012 Volume 25 Issue 1 Pages Toc1-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_Toc1

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[title in Japanese]

Article type: Index
2012 Volume 25 Issue 1 Pages Toc2-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_Toc2

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PERFORMANCE EVALUATION OF BAYESIAN MODEL DIAGNOSTIC METHODS THAT FOCUS ON PREDICTION

Naoki Isogawa, Wataru Sakamoto, Masashi Goto

Article type: Article
2012 Volume 25 Issue 1 Pages 1-13
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_1

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In the framework of Bayesian approach, though we can select various prior distributions according to the situations, many models which should be evaluated exist. However, we think that the diagnosis methods for these models have proper diagnostic situations. In this paper, we consider two diagnostic methods that focus on prediction: the Bayesian predictive information criterion (BPIC) and the prior and posterior predictive checking approach (PCA) and conduct some simulations for the purpose of clarifying the feature of these methods and suggesting the effective diagnostic situations. As the results, regardless of whether the prior mean was true or not, BPIC showed the low values on the occasion with strong prior information, but PCA showed the high predictive checking probabilities on the occasion with weak prior information. So, it might happen that the model with non-true prior mean was selected by simulation setting. To select a proper model, it is necessary to find the performance of the model diagnoses in the situation before model evaluations.

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[title in Japanese]

[in Japanese]

Article type: Article
2012 Volume 25 Issue 1 Pages 15-16
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_15

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STATISTICAL GENETICS LEARNING FROM GENOME-WIDE ASSOCIATION STUDY

Woosung Yang, Shigeo Kamitsuji

Article type: Article
2012 Volume 25 Issue 1 Pages 17-39
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_17

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A genome-wide association study (GWAS) is an approach that exhaustively explores whole genomes for the genetic variation associated with a disease, and much of the present knowledge of the genetic mechanisms for diseases was obtained from GWAS. One reason for the high-quality results being obtained from GWAS is that genomic information is controlled by the laws of inheritance, namely, the well-known Mendelian laws. A gamete including genomic information is stably inherited from parents to child and the observed phenotypic value arises from the combination of the two inherited gametes on the basis of the laws of inheritance. In this report, we introduce the concept of genomic study in the light of statistical genetics. The methods and understandings of and knowledge obtained from GWAS are explained in Sections 2 and 3, respectively. In Section 4, the approaches to GWAS data under the laws of inheritance are introduced to facilitate a literacy for GWAS data. In addition, the statistical design of GWAS is explained in Section 5, and the application to PGx of knowledge obtained from GWAS is introduced in Section 6. We hope that this report will be an aid to the reader's understanding of statistical genetics.

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APPLICATION OF NEXT-GENERATION SEQUENCING TO GENOME RESEARCH

Akira Saito

Article type: Article
2012 Volume 25 Issue 1 Pages 41-51
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_41

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The rapid advancement of next-generation sequencing technology (next-generation sequencer; NGS) provides an opportunity to extend the scale and resolution of current genome research. On the other hand, it raises new challenges such as handling huge amounts of data and the errors specific to this type of data. In this report, I introduce applications of NGS to current genome research. I also discuss some specific examples of recently developed statistical methods for identifying genotype and genetic variation using human resequencing data and provide a guide to the detection of disease-causing genes.

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ESTIMATION, IDENTIFICATION OF LD BLOCK AND ASSOCIATION STDUY FOR HAPLOTYPE ANALYSIS

Makoto Tomita

Article type: Article
2012 Volume 25 Issue 1 Pages 53-68
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_53

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In statistical genetics, the focus is 'haplotypes', which are the major polymorphic markers in DNA data. Therefore, over approximately the last 10 years, the relative frequencies of different haplotypes have been estimated, their structures have been examined, and haplotypes have been used for association studies. We introduce and summarize haplotype analyses of recent years, e.g., identification of haplotype blocks and haplotype association studies.

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[title in Japanese]

Article type: Appendix
2012 Volume 25 Issue 1 Pages 69-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_69

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[title in Japanese]

Article type: Appendix
2012 Volume 25 Issue 1 Pages 70-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_70

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[title in Japanese]

Article type: Appendix
2012 Volume 25 Issue 1 Pages 71-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_71

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[title in Japanese]

Article type: Appendix
2012 Volume 25 Issue 1 Pages App2-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_App2

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[title in Japanese]

Article type: Cover
2012 Volume 25 Issue 1 Pages Cover2-
Published: December 12, 2012
Released on J-STAGE: May 01, 2017

DOIhttps://doi.org/10.20551/jscswabun.25.1_Cover2

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