调控生化途径系统的度量标准。
Metrics for regulated biochemical pathway systems.
机构信息
Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA.
出版信息
Bioinformatics. 2019 Jun 1;35(12):2118-2124. doi: 10.1093/bioinformatics/bty942.
MOTIVATION
The assessment of graphs through crisp numerical metrics has long been a hallmark of biological network analysis. However, typical graph metrics ignore regulatory signals that are crucially important for optimal pathway operation, for instance, in biochemical or metabolic studies. Here we introduce adjusted metrics that are applicable to both static networks and dynamic systems.
RESULTS
The metrics permit quantitative characterizations of the importance of regulation in biochemical pathway systems, including systems designed for applications in synthetic biology or metabolic engineering. They may also become criteria for effective model reduction.
AVAILABILITY AND IMPLEMENTATION
The source code is available at https://gitlab.com/tienbien44/metrics-bsa.
动机
长期以来，通过清晰的数值指标来评估图一直是生物网络分析的标志。然而，典型的图指标忽略了对最佳路径操作至关重要的调节信号，例如在生化或代谢研究中。在这里，我们引入了适用于静态网络和动态系统的调整指标。
结果
这些指标允许对生化途径系统中调节的重要性进行定量描述，包括为合成生物学或代谢工程应用而设计的系统。它们也可能成为有效模型简化的标准。
可用性和实现
源代码可在 https://gitlab.com/tienbien44/metrics-bsa 上获得。
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