VeVaPy, a Python Platform for Efficient Verification and Validation of Systems Biology Models with Demonstrations Using Hypothalamic-Pituitary-Adrenal Axis Models.
VeVaPy, a Python Platform for Efficient Verification and Validation of Systems Biology Models with Demonstrations Using Hypothalamic-Pituitary-Adrenal Axis Models.
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DOI：
10.3390/e24121747
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发表时间：
2022-11-29
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影响因子：
--
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为了使数学模型做出可信的贡献，必须对它们进行验证和确认。目前，这些模型的验证和确认（V&V）不符合系统生物学和系统药理学社区的期望。部分由于这一不足，对现有模型进行系统的V&V目前需要大量的时间和精力。为了促进所选下丘脑-垂体-肾上腺（HPA）轴模型的系统V&V，我们开发了一个名为VeVaPy-taking的计算框架，以遵循有关数学模型开发的推荐最佳实践。VeVaPy包括四个用Python编写的功能模块，源代码是公开的。我们证明了VeVaPy可以帮助我们有效地验证和验证我们选择的五个HPA轴模型。VeVaPy提供了新的独立数据，为每个模型输出客观的V&V基准。我们相信VeVaPy将帮助未来的研究人员具备基本的建模和编程经验，以有效地验证和验证系统生物学和系统药理学领域的数学模型。
In order for mathematical models to make credible contributions, it is essential for them to be verified and validated. Currently, verification and validation (V&V) of these models does not meet the expectations of the system biology and systems pharmacology communities. Partially as a result of this shortfall, systemic V&V of existing models currently requires a lot of time and effort. In order to facilitate systemic V&V of chosen hypothalamic-pituitary-adrenal (HPA) axis models, we have developed a computational framework named VeVaPy—taking care to follow the recommended best practices regarding the development of mathematical models. VeVaPy includes four functional modules coded in Python, and the source code is publicly available. We demonstrate that VeVaPy can help us efficiently verify and validate the five HPA axis models we have chosen. Supplied with new and independent data, VeVaPy outputs objective V&V benchmarks for each model. We believe that VeVaPy will help future researchers with basic modeling and programming experience to efficiently verify and validate mathematical models from the fields of systems biology and systems pharmacology.
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影响因子：
46.9
作者：
Le Novère, N;Finney, A;Wanner, BL
通讯作者：
Wanner, BL
DOI：
10.1093/imammb/dqn003
发表时间：
2008-03-01
影响因子：
1.1
作者：
Bairagi, N.;Chatterjee, Samrat;Chattopadhyay, J.
通讯作者：
Chattopadhyay, J.
影响因子：
3.5
作者：
Bangsgaard, Elisabeth O.;Hjorth, Poul G.;Ottesen, Johnny T.
通讯作者：
Ottesen, Johnny T.
影响因子：
7.7
作者：
Malek, Hamed;Ebadzadeh, Mohammad Mehdi;Zaringhalam, Jalal
通讯作者：
Zaringhalam, Jalal
影响因子：
6.7
作者：
Carroll, B. J.;Cassidy, F.;Veldhuis, J. D.
通讯作者：
Veldhuis, J. D.