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Genome-Wide Association Study Heterogeneous Cohort Homogenization via Subject Weight Knock-Down

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  • André X C N Valente
  • Joseph Zischkau
  • Joo Heon Shin
  • Yuan Gao
  • Abhijit Sarkar

Abstract

Population structure can be a source of both false-positive and false-negative findings in a genome-wide association study. This article proposes an approach that helps to reduce the false-positives. It consists of homogenizing the diseased/healthy phenotype ratio across the cohort, by decreasing the statistical weight of selected individuals. After homogenization, the cohort is statistically handled as if originating from a single well-mixed population. The method was applied to homogenize a Parkinson's disease genome-wide association study cohort.

Suggested Citation

  • André X C N Valente & Joseph Zischkau & Joo Heon Shin & Yuan Gao & Abhijit Sarkar, 2012. "Genome-Wide Association Study Heterogeneous Cohort Homogenization via Subject Weight Knock-Down," PLOS ONE, Public Library of Science, vol. 7(10), pages 1-10, October.
    • Handle: RePEc:plo:pone00:0048653
    DOI: 10.1371/journal.pone.0048653
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    References listed on IDEAS

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    1. B. Devlin & Kathryn Roeder, 1999. "Genomic Control for Association Studies," Biometrics, The International Biometric Society, vol. 55(4), pages 997-1004, December.
    2. Nick Patterson & Alkes L Price & David Reich, 2006. "Population Structure and Eigenanalysis," PLOS Genetics, Public Library of Science, vol. 2(12), pages 1-20, December.
    3. Jun Zhang & Partha Niyogi & Mary Sara McPeek, 2009. "Laplacian Eigenfunctions Learn Population Structure," PLOS ONE, Public Library of Science, vol. 4(12), pages 1-6, December.
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