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Figure 2 | Virology Journal

Figure 2

From: Identification of molecular sub-networks associated with cell survival in a chronically SIVmac-infected human CD4+ T cell line

Figure 2

Strategy and principle of Inter-Chain-Finder (ICF). A. Strategy of deciphering the response of model organisms to conditional changes on the genome scale by an integrative approach based on an integrated network. First, an integrated network is constructed. Gene-profiling data are subsequently used to identify affected interactions in the integrated network at the molecular levels. The ICF then traces back all affected interactive molecular chains (IMCs) and identifies non-differentially (NDiff) and differentially expressed (Diff) key regulators. Finally, regulators and the affected sub-networks are displayed by Cytoscape. The steps in bold are the core steps. The key steps are explained in detail in the Materials and methods. B. Demonstration of the tracing approach for possible, significantly affected IMCs mapping regulators, their upstream effectors and downstream targets. Black arrow represents the direction of IMCs in the available signal network; red dashed arrow represents the direction of chain tracing. R: Regulators (white, NDiff, green/red, Diff); D: Diff genes, red: upregulated, green: downregulated; N: NDiff genes, white.

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