Nicholas A. Allen

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This article presents the results of a qualitative analysis of 80 articles, chapters, and practitoners' guides focused on collaboration and coalition functioning. The purpose of this review was to develop an integrative framework that captures the core competencies and processes needed within collaborative bodies to facilitate their success. The resulting(More)
Two parallel deterministic direct search algorithms are used to find improved parameters for a system of differential equations designed to simulate the cell cycle of budding yeast. Comparing the model simulation results to experimental data is difficult because most of the experimental data is qualitative rather than quantitative. An algorithm to convert(More)
Biological pathway modelers attempt to describe cellular processes and regulatory networks with continuous and discrete models of the cell cycle. Previous practice has been to develop these models largely by hand, and then to validate models primarily by comparing time series plots versus the observed experimental results. This paper reports our experiences(More)
The life of a cell is governed by the physicochemical properties of a complex network of interacting macromolecules (primarily genes and proteins). Hence, a full scientific understanding of and rational engineering approach to cell physiology require accurate mathematical models of the spatial and temporal dynamics of these macromolecular assemblies,(More)
SUMMARY We describe the JigCell Model Builder (JCMB), a tool for creating biochemical reaction network models. JCMB is designed for ease of use and its interface uses the standard spreadsheet metaphor. The JigCell Run Manager (JCRM) is a tool for organizing the large collections of simulation runs typically required by reaction network modeling activities.(More)
—Two parallel deterministic direct search algorithms are used to find improved parameters for a biological model. The model is a system of differential equations designed to simulate the cell cycle of budding yeast. Comparing the model simulation results to experimental data is difficult because most of the experimental data is qualitative rather than(More)
Successfully building a model requires a combination of expertise in the problem domain and in the practice of modeling and simulation (M&S). Model verification, validation, and testing (VV&T) are essential to the consistent production of models that are useful and correct. There are significant communities of domain experts that build and use models(More)
The cell is a highly ordered and intricate machine within which a wide variety of chemical processes take place. The full scientific understanding of cellular physiology requires accurate mathematical models that depict the temporal dynamics of these chemical processes. Modelers build mathematical models of chemical processes primarily from systems of(More)
In an attempt to promote service delivery integration and improve interorganizational collaboration, many recent human service delivery initiatives have included the development of interorganizational alliances such as coalitions and coordinating councils. Despite their popularity, little is known about how these alliances influence interorganizational(More)