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. 2019 Oct 10;47(22):e146. doi: 10.1093/nar/gkz868

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© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 4. — Functional relevance of prediction outcomes. (A) Fractions of positive calls and negative calls for autoimmune diseases in H3K4me1 and H3K27ac regions from the BLUEPRINT epigenome data. (B) Enrichment of positive calls for autoimmune diseases in immune-related cells and psychiatric disorders in brain-related cells from the Epigenome Roadmap project. (C) Proportion of positive (prediction score > 0.5) SNPs and negative (prediction score < 0.5) SNPs that match TF footprints. (D) The ratio of the odds of positive calls in conserved regions to their odds in non-conserved regions. For the conserved regions, we searched association blocks for the primate PhastCons score > 0.5. The odds of positive calls were computed as the ratio of the positive to negative SNPs in the conserved or non-conserved regions. Shown is the odds ratio together with its 95% confidence interval and P value.