Handbook on Analyzing Human Genetic Data

1. Front Matter

   Pages 1-12

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2. Population Genetics

   • Bruce Weir

   Pages 1-23

3. Haplotype Structure

   • Yu Zhang, Tianhua Niu

   Pages 25-79

4. Linkage Analysis of Qualitative Traits

   • Mingyao Li, Gonçalo R. Abecasis

   Pages 81-118

5. Linkage Analysis of Quantitative Traits

   • Christopher I. Amos, Bo Peng, Yaji Xu, Jianzhong Ma

   Pages 119-145

6. Markov Chain Monte Carlo Linkage Analysis Methods

   • Robert P. Igo, Yuqun Luo Jr., Shili Lin

   Pages 147-169

7. Population-Based Association Studies

   • Xiaofeng Zhu, ShuangLin Zhang

   Pages 171-190

8. Family-Based Association Studies

   • Kui Zhang, Hongyu Zhao

   Pages 191-240

9. Haplotype Association Analysis

   • Michael P. Epstein, Lydia C. Kwee

   Pages 241-276

10. Multiple Comparisons/Testing Issues

    • Qingrun Zhang, Jurg Ott

    Pages 277-287

11. Estimating the Absolute Risk of Disease Associated with Identified Mutations

    • Mitchell H. Gail, Nilanjan Chatterjee

    Pages 289-305

12. Processing Large-Scale, High-Dimension Genetic and Gene Expression Data

    • Cliona Molony, Solveig K. Sieberts, Eric E. Schadt

    Pages 307-330

13. Back Matter

    Pages 1-3

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The discipline of statistical genetics is highly computational. Be it exact compu- tionalmethods,simulationbased,orahybridofthetwo,computationalpackagesare indispensable tools and constant companions of researchers in the ?eld. This ha- bookisintendedtoprovidehumangeneticistsandotherbiomedicalresearcherswith guidance on selections of appropriate computational methods and software pa- ages for their speci?c genetic problems. It may also be used by students and other learners as a reference in conjunction with a more theoretical and/or methodolo- cally oriented text book. This book tries to strike a balance between methodological expositions and practical guidelines for software selections. Wherever possible, comparisons among the competing methods and software are made to highlight the relativeadvantagesanddisadvantagesoftheapproaches,so thatthe readercanmake informed choices to best match their speci?c needs. Human genetics has been undergoing an evolution in the past several years as new knowledge and technologies are transforming the ?eld, leading to numerous new discoveriesof genes associated with complex traits such as cancer, obesity, and diabetes. Many recent genome-wide association studies employ the case–control design, where the study subjects consist of unrelated affected individuals and n- mal controls. For each individual, a large number of genetic markers are queried.

• DNA
• association studies
• gene expression
• genes
• genetics
• genome analysis
• linkage analysis
• statistical genetics

• Dept. Statistics, Ohio State University, Columbus, U.S.A.

  Shili Lin

• School of Medicine, Yale University, New Haven, U.S.A.

  Hongyu Zhao

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