Supplementary Figure 11: Overlap between three network-based methods | Nature Methods

Supplementary Figure 11: Overlap between three network-based methods

From: NetSig: network-based discovery from cancer genomes

Supplementary Figure 11

To compare gene predictions from several approaches, we ran HotNet2 and Muffin with the same input data as the NetSig pan cancer analysis (InWeb3 and MutSig data from 21 cancer subtypes). We defined candidate genes from HotNet 2 as all genes present in the predicted networks. We defined candidate genes from Muffinn by using a probability cut off of 0.5, as recommended by the authors. Genes shared between the methods are NetSig–HotNet2: ERBB3, RASA1 and STK11; for HotNet2–Muffinn: EGFR, SMAD4, CREBBP, EP300, TP53 and all methods predicted PIK3CA and PIK3R1.

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