Enhancing Cancer Driver Gene Prediction by Protein-Protein Interaction Network

Chuang Liu, Yao Dai, Keping Yu, Zi Ke Zhang*

*この研究の対応する著者

研究成果: Article査読

4 被引用数 (Scopus)

抄録

With the advances in gene sequencing technologies, millions of somatic mutations have been reported in the past decades, but mining cancer driver genes with oncogenic mutations from these data remains a critical and challenging area of research. In this study, we proposed a network-based classification method for identifying cancer driver genes with merging the multi-biological information. In this method, we construct a cancer specific genetic network from the human protein-protein interactome (PPI) to mine the network structure attributes, and combine biological information such as mutation frequency and differential expression of genes to achieve accurate prediction of cancer driver genes. Across seven different cancer types, the proposed algorithm always achieves high prediction accuracy, which is superior to the existing advanced methods. In the analysis of the predicted results, about 40 percent of the top 10 candidate genes overlap with the Cancer Gene Census database. Interestingly, the feature comparison indicates that the network based features are still more important than the biological features, including the mutation frequency and genetic differential expression. Further analyses also show that the integration of network structure attributes and biological information is valuable for predicting new cancer driver genes.

本文言語English
ページ(範囲)2231-2240
ページ数10
ジャーナルIEEE/ACM Transactions on Computational Biology and Bioinformatics
19
4
DOI
出版ステータスPublished - 2022

ASJC Scopus subject areas

  • バイオテクノロジー
  • 遺伝学
  • 応用数学

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