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. 2015 Feb 4;43(4):1997–2007. doi: 10.1093/nar/gkv074

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© The Author(s) 2015. 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-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 6. — Comparison with other methods. (A) Gene list identified by the frequency-based method, which was ranked based on alteration frequency. (B) Gene list identified by the fisher-based method, which was ranked by the number of related genes. Dashed lines indicate the threshold for top 17 genes. (C) The gene modules identified using the differentially expressed genes. Genes in the same black circle are located in the same chromosomal region. EGFR, CDKN2A, CDKN2B, PTEN, CDK4, PDGFRA, RB1, NF1, MDM4 were known GBM associated genes.