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DriverFinder: A Gene Length-Based Network Method to Identify Cancer Driver Genes

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  • Pi-Jing Wei
  • Di Zhang
  • Hai-Tao Li
  • Junfeng Xia
  • Chun-Hou Zheng

Abstract

Integration of multi-omics data of cancer can help people to explore cancers comprehensively. However, with a large volume of different omics and functional data being generated, there is a major challenge to distinguish functional driver genes from a sea of inconsequential passenger genes that accrue stochastically but do not contribute to cancer development. In this paper, we present a gene length-based network method, named DriverFinder, to identify driver genes by integrating somatic mutations, copy number variations, gene-gene interaction network, tumor expression, and normal expression data. To illustrate the performance of DriverFinder, it is applied to four cancer types from The Cancer Genome Atlas including breast cancer, head and neck squamous cell carcinoma, thyroid carcinoma, and kidney renal clear cell carcinoma. Compared with some conventional methods, the results demonstrate that the proposed method is effective. Moreover, it can decrease the influence of gene length in identifying driver genes and identify some rare mutated driver genes.

Suggested Citation

  • Pi-Jing Wei & Di Zhang & Hai-Tao Li & Junfeng Xia & Chun-Hou Zheng, 2017. "DriverFinder: A Gene Length-Based Network Method to Identify Cancer Driver Genes," Complexity, Hindawi, vol. 2017, pages 1-10, August.
    • Handle: RePEc:hin:complx:4826206
    DOI: 10.1155/2017/4826206
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    References listed on IDEAS

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    1. Eric E. Schadt, 2009. "Molecular networks as sensors and drivers of common human diseases," Nature, Nature, vol. 461(7261), pages 218-223, September.
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