Chunk #10 — Methods — Coloc Analysis

Source

Identification of Candidate Parkinson Disease Genes by Integrating Genome-Wide Association Study, Expression, and Epigenetic Data Sets.

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For both the Braineac and GTEx data sets, we derived posterior probabilities (PPH0-4) for each gene and considered PPH4 of 0.75 or more as strong evidence for colocalization. For Braineac, we also looked at genes for which there is strong evidence of colocalization at the exon level for a given exon (exon PPH4 ≥ 0.75), but evidence against colocalization for the whole gene (gene PPH3>gene PPH4), to identify potential splicing events causing PD.