Detailed methods and additional results.

Detailed description of the methods, including a model for Z, regularization of the sample covariance matrix, the beta-binomial approximation, pre-computation for the ADELLE test, assessment of type 1 error with Monte Carlo p-values, and generation of the correlation matrix for simulations. Additional results consist of numeric power results corresponding to Figs 2 and 3, power results for ADELLE with different choices of q, and significant trans eQTL detections by ADELLE in a region of Chrom 12 in the mouse AIL dataset.

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