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Gao, Yajie Yuan, Qianqian Mao, Zhitao Liu, Hao Ma, Hongwu
Published in
BMC Microbiology
BackgroundGraph-based analysis (GBA) of genome-scale metabolic networks has revealed system-level structures such as the bow-tie connectivity that describes the overall mass flow in a network. However, many pathways obtained by GBA are biologically impossible, making it difficult to study how the global structures affect the biological functions of...
Li, Jianjie Gao, Yuqi Yu, Xuan
Published in
PeerJ
Background The hypoxia-inducible factor-1 (HIF-1) signaling pathway is an important topic in high-altitude medicine. Network analysis is a novel method for integrating information on different aspects and levels of biological networks. However, this method has not been used in research on the HIF-1 signaling pathway network. To introduce this metho...
Nakamoto, Tembo Chakraborty, Abhijit Ikeda, Yuichi
Published in
Applied Network Science
In the global economy, the intermediate companies owned by multinational corporations (MNCs) have become important players in policy issue, influencing the international profit shifting and diversion of foreign direct investment (FDI). The purpose of this analysis is to identify and analyze high-risk intermediate companies used for international pr...
Ma, Hong-Wu Zeng, An-Ping
Published in
Computational Systems Biology
Understanding the complex interactions among cellular components (genes, proteins and metabolites) at a network level is a key issue in systems biology. In this chapter, we give an overview of metabolic network reconstruction from genome information and its structural analysis. First, two approaches for genome scale metabolic network reconstruction...
