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. 2016 Nov 28;45(2):583–596. doi: 10.1093/nar/gkw1100

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© The Author(s) 2016. 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 2. — Functional epigenetic alterations preferentially target genes in the extra-cellular/transmembrane domains, with SCNA counterparts preferentially mapping to the intra-cellular domain. Top Row: Barplots comparing the observed and expected numbers of genes for two different signaling domains (extracellular+transmembrane receptor: EC+MR, and intra-cellular: IC) for HyperM group (hypermethylated and underexpressed genes) across 10 TCGA cancer types. P-values are from a one-tailed Fisher's exact test. Alternative hypothesis is that the odds ratio of finding more genes mapping to the EC+MR domain is >1. Row-2: As before but for the HypoM group (hypomethylated and overexpressed genes). P-values are from a one-tailed Fisher's exact test. Alternative hypothesis is that the odds ratio of finding more genes mapping to the EC+MR domain is >1. Middle Row: As before but for the Deletion group (SCN deletion and underexpressed genes). P-values are from a one-tailed Fisher's exact test. Alternative hypothesis is that the odds ratio of finding more genes mapping to the EC+MR domain is <1. Second last row: As before but for Amplification group (SCN gain and overexpressed genes). P-values are from a one-tailed Fisher's exact test. Alternative hypothesis is that the odds ratio of finding more genes mapping to the EC+MR domain is <1. Last row: As before, but for Mutation group (mutated genes). P-values are from a one-tailed Fisher's exact test. Alternative hypothesis is that the odds ratio of finding more genes mapping to the EC+MR domain is >1.