XM: association testing on the X-chromosome in case-control samples with related individuals.

Genetic Epidemiology
Timothy ThorntonMary Sara McPeek

Abstract

Genetic variants on the X-chromosome could potentially play an important role in some complex traits. However, development of methods for detecting association with X-linked markers has lagged behind that for autosomal markers. We propose methods for case-control association testing with X-chromosome markers in samples with related individuals. Our method, XM, appropriately adjusts for both correlation among relatives and male-female allele copy number differences. Features of XM include: (1) it is applicable to and computationally feasible for completely general combinations of family and case-control designs; (2) it allows for both unaffected controls and controls of unknown phenotype to be included in the same analysis; (3) it can incorporate phenotype information on relatives with missing genotype data; and (4) it adjusts for sex-specific trait prevalence values. We propose two other tests, Xχ and XW, which can also be useful in certain contexts. We derive the best linear unbiased estimator of allele frequency, and its variance, for X-linked markers. In simulation studies with related individuals, we demonstrate the power and validity of the proposed methods. We apply the methods to X-chromosome association analysis of (1) ...Continue Reading

References

May 1, 1976·Annals of Human Genetics·K LangeM A Spence
Dec 15, 1993·American Journal of Medical Genetics·E J DevorB Tabakoff
May 10, 2000·American Journal of Human Genetics·S A BacanuK Roeder
Apr 21, 2001·Biometrics·B Devlin, K Roeder
May 16, 2001·American Journal of Human Genetics·S L Slager, D J Schaid
Aug 6, 2002·Science·Avshalom CaspiRichie Poulton
Aug 21, 2003·American Journal of Human Genetics·Catherine BourgainMary Sara McPeek
Mar 17, 2004·Molecular Psychiatry·J H BeitchmanJ L Kennedy
Jun 8, 2004·Biometrics·Mary Sara McPeekCarole Ober
Dec 4, 2004·Genetic Epidemiology·Sharon R BrowningMichael J Wagner
Jun 6, 2007·Genetic Epidemiology·Gang ZhengNancy L Geller
Aug 2, 2007·American Journal of Human Genetics·Timothy Thornton, Mary Sara McPeek
Apr 24, 2008·Proceedings of the National Academy of Sciences of the United States of America·Hurng-Yi WangChung-I Wu
Apr 29, 2008·Biostatistics·David Clayton
Apr 1, 2009·Genetic Epidemiology·Yoonha ChoiBruce S Weir
Feb 9, 2010·American Journal of Human Genetics·Timothy Thornton, Mary Sara McPeek
Apr 30, 2010·Journal of the American Statistical Association·Zuoheng Wang, Mary Sara McPeek
Feb 18, 2011·Human Heredity·Christina LoleyInke R König
Aug 6, 2011·Genetic Epidemiology·Peter F Hickey, Melanie Bahlo

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Citations

Jul 31, 2014·Bioinformatics·Sungkyoung ChoiSungho Won
Dec 8, 2015·Genetic Epidemiology·Stacey J WinhamJoanna M Biernacka
May 7, 2013·American Journal of Human Genetics·Anastasia L WiseTeri A Manolio
Jun 22, 2016·Genetic Epidemiology·Sungkyoung ChoiSungho Won
Oct 19, 2017·Genes, Brain, and Behavior·E E BlueE M Wijsman
Jul 2, 2019·Statistical Methods in Medical Research·Dongxiao HanWei Xu
Aug 31, 2020·Genetic Epidemiology·Asuman S Turkmen, Shili Lin
Sep 21, 2020·CNS Neuroscience & Therapeutics·Laura Torre-FuentesJorge Matías-Guiu
Dec 24, 2018·Nutrients·Dolores CorellaJose M Ordovas

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