Title:
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MUFFINN: cancer gene discovery via network analysis of somatic mutation data
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Author:
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Cho, Ara; Shim, Jung; Kim, Eiru; Supek, Fran; Lehner, Ben, 1978-; Lee, Insuk
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Abstract:
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A major challenge for distinguishing cancer-causing driver mutations from inconsequential passenger mutations is the long-tail of infrequently mutated genes in cancer genomes. Here, we present and evaluate a method for prioritizing cancer genes accounting not only for mutations in individual genes but also in their neighbors in functional networks, MUFFINN (MUtations For Functional Impact on Network Neighbors). This pathway-centric method shows high sensitivity compared with gene-centric analyses of mutation data. Notably, only a marginal decrease in performance is observed when using 10 % of TCGA patient samples, suggesting the method may potentiate cancer genome projects with small patient populations. |
Abstract:
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This research was partly supported by grants from the National Research Foundation of Korea (2012M3A9B4028641, 2012M3A9C7050151, 2015R1A2A1A15055859), Brain Korea 21 (BK21) PLUS program to I.L., Global PH.D Fellowship Program through the National Research Foundation of Korea (2011-0008548) to A.C., the European Research Council (Consolidator grant IR-DC, 616434), the Spanish Ministry of Economy and Competitiveness (BFU2011-26206 and SEV-2012-0208), the AXA Research Fund, and AGAUR to B.L., the FP7 FET grant MAESTRA (ICT-2013-612944) and Marie Curie Actions to F.S. |
Subject(s):
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-Cancer gene prediction -Cancer somatic mutation -Cancer genomes -Mutation frequency -Functional gene network -Pathway-centric analysis |
Rights:
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© 2016 The Author(s). Open Access. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
http://creativecommons.org/licenses/by/4.0/ |
Document type:
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Article Article - Published version |
Published by:
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BioMed Central
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