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Analytical estimation of the power of linkage analysis in large pedigrees

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Abstract

Different approaches to analytical calculation of the power in linkage analysis whose efficiencies have been demonstrated in small pedigrees are described. The possibility of applying them to large pedigrees has been estimated. Equivalence of the analytical estimates of power obtained using different approaches based on analysis of individual pairs of relatives has been shown. The accuracy of the resultant analytical estimation of the power has been analyzed for three large pedigrees and a wide range of quantitative trait inheritance models; the accuracy has been demonstrated to be sufficiently high and equal to the accuracy in the case of small pedigrees.

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References

  1. Hopper, J.L. and Mathews, J.D., Extensions to Multivariate Normal Models for Pedigree Analysis, Ann. Hum. Genet., 1982, vol. 46, pp. 373–383.

    Article  CAS  PubMed  Google Scholar 

  2. Goldgar, D.E., Multipoint Analysis for Human Quantitative Genetic Variation, Am. J. Hum. Genet., 1990, vol. 47, pp. 957–967.

    CAS  PubMed  Google Scholar 

  3. Schork, N.J., Efficient Computation of Patterned Covariance Matrix Mixed Model in Quantitative Segregation Analysis, Genet. Epidemiol., 1991, vol. 8, pp. 29–46.

    Article  CAS  PubMed  Google Scholar 

  4. Schork, N.J., Extended Pedigree Patterned Covariance Matrix Mixed Model for Quantitative Phenotype Analysis, Genet. Epidemiol., 1992, vol. 9, pp. 73–86.

    Article  CAS  PubMed  Google Scholar 

  5. Schork, N.J., Extended Multipoint Identity-by-Descent Analysis of Human Quantitative Traits: Efficiency, Power and Modeling Considerations, Am. J. Hum. Genet., 1993, vol. 53, pp. 1306–1319.

    CAS  PubMed  Google Scholar 

  6. Amos, C.I., Robust Variance-Components Approach for Assessing Genetic Linkage in Pedigree, Am. J. Hum. Genet., 1994, vol. 54, pp. 535–543.

    CAS  PubMed  Google Scholar 

  7. Fulker, D.W. and Cherny, S.S., An Improved Multipoint Sib-Pair Analysis of Quantitative Traits, Behav. Genet., 1996, vol. 26, pp. 527–532.

    Article  CAS  PubMed  Google Scholar 

  8. Almasy, L. and Blangero, J., Multipoint Quantitative-Trait Linkage Analysis in General Pedigrees, Am. J. Hum. Genet., 1998, vol. 62, pp. 1198–1211.

    Article  CAS  PubMed  Google Scholar 

  9. Sham, P.C., Cherny, S.S., Purcell, S., and Hewitt, J.K., Power of Linkage versus Association Analysis of Quantitative Traits, by Use of Variance-Components Models, for Sibship Data, Am. J. Hum. Genet., 2000, vol. 66, pp. 1616–1630.

    Article  CAS  PubMed  Google Scholar 

  10. Blangero, J., Williams, J.T., and Almasy, L., Variance Component Methods for Detecting Complex Trait Loci, Adv. Genet., 2001, vol. 42, pp. 151–192.

    Article  CAS  PubMed  Google Scholar 

  11. Pugh, E.W., Jaquish, C.E., Sorant, A.J., et al., Comparison of Sib-Pair and Variance Components Methods for Genomic Screening, Genet. Epidemiol., 1997, vol. 14, pp. 705–710.

    Article  PubMed  Google Scholar 

  12. Shugart, Y.Y. and Goldgar, D.E., Multipoint Genomic Scanning for Quantitative Loci: Effects of Map Density, Sibship Size, and Computational Approach, Eur. J. Hum. Genet., 1999, vol. 7, pp. 103–109.

    Article  CAS  PubMed  Google Scholar 

  13. Williams, J.T. and Blangero, J., Comparison of Variance Components and Sibpair-Based Approaches to Quantitative Trait Linkage Analysis in Unselected Samples, Genet. Epidemiol., 1999, vol. 16, pp. 113–134.

    Article  CAS  PubMed  Google Scholar 

  14. Svischeva, G.R., Quantitative Trait Locus Analysis of Hybrid Pedigrees: Variance-Components Model, Inbreeding Parameter, and Power, BMC Genet., 2007, vol. 8, no. 50, pp. 1–13.

    Google Scholar 

  15. Kendall, M.G. and Stuart, A., The Advanced Theory of Statistics, London: Griffin, 1979.

    Google Scholar 

  16. Williams, J.T. and Blangero, J., Power of Variance Component Linkage Analysis to Detect Quantitative Trait Loci, Ann. Hum. Genet., 1999, vol. 63, pp. 545–563.

    Article  CAS  PubMed  Google Scholar 

  17. Rijsdijk, F.V., Hewitt, J.K., and Sham, P.C., Analytic Power Calculation for QTL Linkage Analysis of Small Pedigrees, Eur. J. Hum. Genet., 2001, vol. 9, pp. 335–340.

    Article  CAS  PubMed  Google Scholar 

  18. Boichard, D., PEDIG: A Fortran Package for Pedigree Analysis Suited for Large Populations, in Proceedings of 7th World Congress on Genetics Applied to Livestock Production, Montpellier, 2002, vol. 32, pp. 525–528.

    Google Scholar 

  19. Boichard, D., Maignel, L., and Verrier, E., The Value of Using Probabilities of Gene Origin to Measure Genetic Variability in a Population, Genet. Sel. Evol., 1997, vol. 29, pp. 5–23.

    Article  Google Scholar 

  20. Chen, W.-M. and Abecasis, G.R., Estimating the Power of Variance Component Linkage Analysis in Large Pedigrees, Genet. Epidemiol., 2006, vol. 30, pp. 471–484.

    Article  PubMed  Google Scholar 

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Authors and Affiliations

  1. Institute of Cytology and Genetics, Siberian Branch, Russian Academy of Sciences, Novosibirsk, 630090, Russia

    G. R. Svischeva & T. I. Axenovich

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  1. G. R. Svischeva
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  2. T. I. Axenovich
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Correspondence to G. R. Svischeva.

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Original Russian Text © G.R. Svischeva, T.I. Axenovich, 2010, published in Genetika, 2010, Vol. 46, No. 1, pp. 118–126.

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Svischeva, G.R., Axenovich, T.I. Analytical estimation of the power of linkage analysis in large pedigrees. Russ J Genet 46, 105–112 (2010). https://doi.org/10.1134/S1022795410010163

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  • DOI: https://doi.org/10.1134/S1022795410010163

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