Author: Noh, Heeju; Shoemaker, Jason E; Gunawan, Rudiyanto
Title: Network perturbation analysis of gene transcriptional profiles reveals protein targets and mechanism of action of drugs and influenza A viral infection Document date: 2018_4_6
ID: j80hnhpb_57
Snippet: The PGRN model (see Equation (1)) belongs to a class of modeling framework called Biochemical Systems Theory, specifically the S-systems model (71) . In addition to gene regulatory networks, S-system modeling have also been used to describe other cellular networks, including signal transduction pathways and metabolic reaction networks (72) . Therefore, the principle used in ProTINA could be readily adapted to infer perturbations in cellular signa.....
Document: The PGRN model (see Equation (1)) belongs to a class of modeling framework called Biochemical Systems Theory, specifically the S-systems model (71) . In addition to gene regulatory networks, S-system modeling have also been used to describe other cellular networks, including signal transduction pathways and metabolic reaction networks (72) . Therefore, the principle used in ProTINA could be readily adapted to infer perturbations in cellular signalling or metabolic networks, for example from proteomic and metabolomics profiles, respectively. Besides PGRNs and gene transcriptional profiles, we have not applied ProTINA to analyze other types of cellular networks and data, as such an application was beyond the scope of our work.
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