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Network Biology, 2013, 3(4): 121-132
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Article

Identification of crucial metabolites/reactions in tumor signaling networks

JingRon Li1, WenJun Zhang1,2
1School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China
2International Academy of Ecology and Environmental Sciences, Hong Kong

Received 23 June 2013;Accepted 19 July 2013;Published online 1 December 2013
IAEES

Abstract
Changes in metabolites/reactions of cell signaling pathways play a key role in tumorigenesis. In present study, betweenness centrality, degree and k-core value of every metabolite/reaction in tumor signaling pathways p53, AKT, Ras, JAK-STAT, TNF, and VEGF were calculated. Crucial metabolites/reactions in these tumor signaling networks were identified using betweenness centrality. The p53-P-P was identified as the most important metabolite/reaction in p53 signaling pathway, followed by (Ac-p53-P)2 and DNA damage; Akt is the most important metabolite/reaction in AKT signaling pathway, followed by PI3K and PIP3; Ras-GTP is the most important metabolite/reaction in TNF signaling pathway, followed by MEKK1, JNKK and Ras-GDP. The k-core analysis showed that VEGF signaling pathway is the most compact network among these signaling pathways.

Keywords tumor;signaling pathway;crucial metabolite/reaction;k-core analysis;betweenness centrality.


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