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Creating a Kinship Matrix Using Microsatellite Analyzer (MSA) Tutorial

Last Updated: April 02, 2012

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Author:

Zhifen Zhang, The Ohio State University

This tutorial provides an overview of kinship matrices. An example of using Microsatellite Analzyer (MSA) to create a kinship matrix for association mapping using the unified mixed model is presented. The tutorial is available in Slideshare and PDF formats.

Tutorial Objectives

Introduce the concept of a kinship matrix
Visualize where a kinship matrix is used in the unified mixed model for association mapping
Demonstrate how to generate a kinship matrix using Microsatellite Analyzer (MSA)

Creating a Kinship Matrix Using MSA

References Cited

Cavalli-Sforza, L. L., and W. F. Bodmer. 1971. The genetics of human populations, W.H. Freeman and Company, NY.
Lange, K. 2002. Mathematical and statistical methods for genetic analysis, 2nd edition. Springer-Verlag, NY.
Yu, J. G. Pressoir, W. H. Briggs, I. V. Bi, M. Yamasaki, J. F. Doebley, M. D. McMullen, B. S. Gaut, D. M. Nielsen, J. B. Holland, S. Kresovich, and E. S. Buckler. 2006. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nature Genetics 38: 203-208. (Available online at: http://dx.doi.org/10.1038/ng1702) (verified 10 Feb 2012).
Zhu, C. M. Gore, E. S. Buckler, and J. Yu. 2008. Status and prospects of association mapping in plants. The Plant Genome 1: 5-20. (Available online at: http://dx.doi.org/10.3835/plantgenome2008.02.0089) (verified 10 Feb 2012).

External Link

Dieringer, D. Microsatellite analyzer (MSA) [Online]. Available at: http://i122server.vu-wien.ac.at/MSA/MSA_download.html (verified 10 Feb 2012).

Funding Statement

Development of this page was supported in part by the National Institute of Food and Agriculture (NIFA) Solanaceae Coordinated Agricultural Project, agreement 2009-85606-05673, administered by Michigan State University. Any opinions, findings, conclusions, or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the view of the United States Department of Agriculture.

Attachments:

KinshipMatrixFinal.pdf (1.7 MB)

PBGworks 1170

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