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A computational approach for the discovery of significant cancer genes by weighted mutation and asymmetric spreading strength in networks.


ABSTRACT: Identifying significantly mutated genes in cancer is essential for understanding the mechanisms of tumor initiation and progression. This task is a key challenge since large-scale genomic studies have reported an endless number of genes mutated at a shallow frequency. Towards uncovering infrequently mutated genes, gene interaction networks combined with mutation data have been explored. This work proposes Discovering Significant Cancer Genes (DiSCaGe), a computational method for discovering significant genes for cancer. DiSCaGe computes a mutation score for the genes based on the type of mutations they have. The influence received for their neighbors in the network is also considered and obtained through an asymmetric spreading strength applied to a consensus gene network. DiSCaGe produces a ranking of prioritized possible cancer genes. An experimental evaluation with six types of cancer revealed the potential of DiSCaGe for discovering known and possible novel significant cancer genes.

SUBMITTER: Cutigi JF 

PROVIDER: S-EPMC8651746 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature

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A computational approach for the discovery of significant cancer genes by weighted mutation and asymmetric spreading strength in networks.

Cutigi Jorge Francisco JF   Evangelista Adriane Feijo AF   Reis Rui Manuel RM   Simao Adenilso A  

Scientific reports 20211207 1


Identifying significantly mutated genes in cancer is essential for understanding the mechanisms of tumor initiation and progression. This task is a key challenge since large-scale genomic studies have reported an endless number of genes mutated at a shallow frequency. Towards uncovering infrequently mutated genes, gene interaction networks combined with mutation data have been explored. This work proposes Discovering Significant Cancer Genes (DiSCaGe), a computational method for discovering sign  ...[more]

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