Dynamic models for metabolomics data integration

IF 3.4 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY
Polina Lakrisenko , Daniel Weindl
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引用次数: 2

Abstract

As metabolomics datasets are becoming larger and more complex, there is an increasing need for model-based data integration and analysis to optimally leverage these data. Dynamic models of metabolism allow for the integration of heterogeneous data and the analysis of dynamic phenotypes. Here, we review recent efforts in using dynamic metabolic models for data integration, focusing on approaches based on ordinary differential equations that are applicable to both time-resolved and steady-state measurements and that do not require flux distributions as inputs. Furthermore, we discuss recent advances and current challenges. We conclude that much progress has been made in various areas, such as the development of scalable simulation tools, and although challenges remain, dynamic modeling is a powerful tool for metabolomics data analysis that is not yet living up to its full potential.

代谢组学数据整合的动态模型
随着代谢组学数据集变得越来越大,越来越复杂,越来越需要基于模型的数据集成和分析,以最佳地利用这些数据。代谢的动态模型允许异质数据的整合和动态表型的分析。在这里,我们回顾了最近在使用动态代谢模型进行数据集成方面的努力,重点关注基于常微分方程的方法,这些方法既适用于时间分辨测量,也适用于稳态测量,而且不需要通量分布作为输入。此外,我们还讨论了最近的进展和当前的挑战。我们得出的结论是,在各个领域都取得了很大进展,例如可扩展模拟工具的开发,尽管仍然存在挑战,动态建模是代谢组学数据分析的强大工具,但尚未充分发挥其潜力。
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来源期刊
Current Opinion in Systems Biology
Current Opinion in Systems Biology Mathematics-Applied Mathematics
CiteScore
7.10
自引率
2.70%
发文量
20
期刊介绍: Current Opinion in Systems Biology is a new systematic review journal that aims to provide specialists with a unique and educational platform to keep up-to-date with the expanding volume of information published in the field of Systems Biology. It publishes polished, concise and timely systematic reviews and opinion articles. In addition to describing recent trends, the authors are encouraged to give their subjective opinion on the topics discussed. As this is such a broad discipline, we have determined themed sections each of which is reviewed once a year. The following areas will be covered by Current Opinion in Systems Biology: -Genomics and Epigenomics -Gene Regulation -Metabolic Networks -Cancer and Systemic Diseases -Mathematical Modelling -Big Data Acquisition and Analysis -Systems Pharmacology and Physiology -Synthetic Biology -Stem Cells, Development, and Differentiation -Systems Biology of Mold Organisms -Systems Immunology and Host-Pathogen Interaction -Systems Ecology and Evolution
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