Chapter 7 – Big Offensive and Defensive Mechanisms in Systems Immunity From System Modeling and Big Data Mining

In this chapter, the Big Offensive and Defensive Mechanisms in systems immunity are investigated using system modeling and big data mining methods through high-throughput data. As inflammation is a hallmark of many human diseases, the mechanisms controlling systemic inflammation have long been an important topic in basic and clinical research. We first constructed a transcriptional regulatory network of systemic inflammation in response to bacterial endotoxins to investigate important systematic properties such as the susceptibility and robustness to inflection. Next, the infection-related protein–protein interaction (PPI) networks of two species and the intercellular PPI network between host and pathogen were simultaneously constructed and combined to understand the systematic mechanisms underlying the pathogenicity of pathogen and the host immune response, and to help improve medical therapy and facilitate new drug development. Finally, the pathogenic and defensive mechanisms in HIV infection were investigated by constructing an interspecies PPI network and miRNA regulation network based on two-sided next-generation sequencing data and extracting their common and specific core network markers. The resultant information may offer new drug targets for effective AIDS therapy.