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  • © 2015

Assessing Rare Variation in Complex Traits

Design and Analysis of Genetic Studies

  • Covers multiple aspects of study design, analysis and interpretation for complex trait studies focusing on rare sequence variation
  • Unique in discussing a wide range of design and analysis issues in genetic studies of rare variants
  • Collaborations include many experts in the field through large-scale international consortia including the UK10K Project, GO-T2D and T2D-GENes

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Table of contents (19 chapters)

  1. Front Matter

    Pages i-xi
  2. Calling Rare Variants from Genotype Data

    • Jacqueline I. Goldstein, Benjamin M. Neale
    Pages 1-13
  3. Calling Variants from Sequence Data

    • Andy Rimmer
    Pages 15-31
  4. Rare Variant Quality Control

    • Anubha Mahajan, Neil Robertson
    Pages 33-43
  5. Rare Structural Variants

    • Menachem Fromer, Shaun Purcell
    Pages 45-56
  6. Functional Annotation of Rare Genetic Variants

    • Graham R. S. Ritchie, Paul Flicek
    Pages 57-70Open Access
  7. The 1000 Genomes Project

    • Adam Auton, Tovah Salcedo
    Pages 71-85
  8. Population Isolates

    • Ilenia Zara
    Pages 107-122
  9. Natural Selection at Rare Variants

    • Yali Xue, Chris Tyler-Smith
    Pages 123-133
  10. Collapsing Approaches for the Association Analysis of Rare Variants

    • Jennifer L. Asimit, Andrew Morris
    Pages 135-148
  11. Rare Variant Association Analysis: Beyond Collapsing Approaches

    • Han Chen, Josée Dupuis
    Pages 149-167
  12. Significance Thresholds for Rare Variant Signals

    • Celia M. T. Greenwood, ChangJiang Xu, Antonio Ciampi
    Pages 169-183
  13. Power of Rare Variant Aggregate Tests

    • Manuel A. Rivas, Loukas Moutsianas
    Pages 185-199
  14. Replicating Sequencing-Based Association Studies of Rare Variants

    • Dajiang J. Liu, Suzanne M. Leal
    Pages 201-213
  15. Meta-Analysis of Rare Variants

    • Ioanna Tachmazidou, Eleftheria Zeggini
    Pages 215-226
  16. Population Stratification of Rare Variants

    • Emmanuelle Génin, Sébastien Letort, Marie-Claude Babron
    Pages 227-237
  17. Use of Appropriate Controls in Rare-Variant Studies

    • Audrey E. Hendricks
    Pages 239-252
  18. Trans-Ethnic Fine-Mapping of Rare Causal Variants

    • Xu Wang, Yik-Ying Teo
    Pages 253-261
  19. Erratum to: Functional Annotation of Rare Genetic Variants

    • Graham R. S. Ritchie, Paul Flicek
    Pages E1-E1

About this book

This book is unique in covering a wide range of design and analysis issues in genetic studies of rare variants, taking advantage of collaboration of the editors with many experts in the field through large-scale international consortia including the UK10K Project, GO-T2D and T2D-GENES. Chapters provide details of state-of-the-art methodology for rare variant detection and calling, imputation and analysis in samples of unrelated individuals and families. The book also covers analytical issues associated with the study of rare variants, such as the impact of fine-scale population structure, and with combining information on rare variants across studies in a meta-analysis framework.

Genetic association studies have in the last few years substantially enhanced our understanding of factors underlying traits of high medical importance, such as body mass index, lipid levels, blood pressure and many others. There is growing empirical evidence that low-frequency and rare variants play animportant role in complex human phenotypes. This book covers multiple aspects of study design, analysis and interpretation for complex trait studies focusing on rare sequence variation. In many areas of genomic research, including complex trait association studies, technology is in danger of outstripping our capacity to analyse and interpret the vast amounts of data generated. The field of statistical genetics in the whole-genome sequencing era is still in its infancy, but powerful methods to analyse the aggregation of low-frequency and rare variants are now starting to emerge.

The chapter Functional Annotation of Rare Genetic Variants is available open access under a Creative Commons Attribution 4.0 International License via link.springer.com.

Editors and Affiliations

  • Wellcome Trust Sanger Institute, Hinxton, UK

    Eleftheria Zeggini

  • Department of Biostatistics, University of Liverpool, Liverpool, UK

    Andrew Morris

Bibliographic Information

Buy it now

Buying options

eBook USD 129.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 169.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access