期刊名称：Journal of Computer Science & Systems Biology
印刷版ISSN：0974-7230
出版年度：2013
卷号：6
期号：2
页码：057-072
DOI：10.4172/jcsb.1000101
出版社：OMICS Publishing Group
摘要：Graph drawing is one of the imperative techniques for understanding biological regulations in a cell or among cells at the pathway level. Dynamic modeling and simulation of signaling pathways is a fundamental issue in systems biology and has growing attention from researchers with experimental or theoretical background. Here is an attempt to develop a reliable method for the analysis and modeling of specific signaling pathways contributing for the endotoxin clearance. Here, integration of proteins in signaling pathways was analyzed, which enables the understanding of complex cellular processes. In pathway drawing, location information is essential for its comprehension. However, complex shapes need to be taken into account when torus-shaped location information such as nuclear inner membrane, nuclear outer membrane, and plasma membrane is considered. Schwartz introduced the notion of crosstalk, referring to the case that two inputs work through distinct signaling pathways but cooperate to regulate cell signaling. In disquiet to that current study hypothesized at adopting electronic circuit block diagrams for the analysis of pathways contribute for endotoxin neutralization, by developing a logical circuit models and simulate using Very High Speed Integrated Circuit Hardware Description Language (VHDL), here mathematical models are developed as a viaduct between pathway model and circuit model. This method is reliable since it helps calculating the flux at each node. The method establishes that the multiple signaling pathways do not have the additive effect but the signals will cancel at the converging points. The established method can be applied for any network modeling and calculation of signal flux from different nodes to nucleus, degree of error depends on pathway modeling since it is a manual process errors in modeling can reflect on method reliability.
关键词：Pathway modeling; Systems biology; Crosstalk; Endotoxin ; Flux
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