Linking epigenetic marks to clinical outcomes improves insight into molecular processes,
disease prediction, and therapeutic target identification. Here, a statistical approach is
presented to infer the epigenetic architecture of complex disease, determine the variation
captured by epigenetic effects, and estimate phenotype-epigenetic probe associations
jointly. Implicitly adjusting for probe correlations, data structure (cell-count or relatedness),
and single-nucleotide polymorphism (SNP) marker effects, improves association estimates …