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Signaling pathway impact analysis by incorporating the importance and specificity of genes (SPIA-IS).

Abstract：

:rlying biology of differentially expressed genes and proteins. Although various approaches have been proposed to identify cancer-related pathways, most of them only partially consider the influence of those differentially expressed genes, such as the gene numbers, their perturbation in the signaling transduction, and the interaction between genes. Signaling-pathway impact analysis (SPIA) provides a convenient framework which considers both the classical enrichment analysis and the actual perturbation on a given pathway. In this study, we extended previous proposed SPIA by incorporating the importance and specificity of genes (SPIA-IS). We applied this approach to six datasets for colorectal cancer, lung cancer, and pancreatic cancer. Results from these datasets showed that the proposed SPIA-IS could effectively improve the performance of the original SPIA in identifying cancer-related pathways.

journal_name

Comput Biol Chem

journal_title

Computational biology and chemistry

authors

Fang H,Li X,Zan X,Shen L,Ma R,Liu W

doi

10.1016/j.compbiolchem.2017.09.009

subject

Has Abstract

pub_date

2017-12-01 00:00:00

pages

236-244

eissn

1476-9271

issn

1476-928X

pii

S1476-9271(17)30634-5

journal_volume

71

pub_type

杂志文章

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