Modeling for Heart, Lung, and Blood: From Cell to Organ

描述(由申请人提供)： 该应用程序是为响应RFA-HL-07-002号文件编写的，题为《心、肺和血液的建模：从细胞到器官》，旨在本着Physiome努力的精神为研究人员提供计算建模方面的培训，该努力的目标是发展定量生物学，以改进从基因到健康的医学科学。该方案将包括每年2个课程、会议讲习班、网络教程和建模、免费分发的模型方案和建模系统资料库以及个别受训人员后续培训方案。中心任务是帮助研究人员在设计有效的实验研究和使用综合生理模型分析数据方面发展专门知识。这些课程的重点是应用科学方法的原理来设计和测试假说，并使用诊断和治疗观察的参数和分类。涵盖的范围从细胞和亚细胞系统的生物物理和生化水平模块的开发，到心血管、呼吸和血液系统的全身集成系统。通过使用JSim从课程的第一个小时开始动手建模，参与者将学习如何检查数据以开发假设，如何将想法转化为可测试的数学模型-假设，如何评估计算机解决方案的准确性和准确性，如何使用建模设计关键实验，如何通过优化技术分析数据，为参数提供残差和置信度范围，以及如何评估假设的有效性和迭代假设-模型-实验-验证循环。课程参与者将使用与平台无关的仿真分析系统JSim和MatLab等软件。他们将学习适合于求解ODES、Gepasi、XPPAUT等的模拟系统以及其他工具，如系统生物学工作台。参与者也可以选择回国接受个人培训或进行合作研究。每年6月的课程将强调基本的生物物理、生理和生化模块的设计和建造，并将其应用于临床研究，使用正电子发射断层扫描或磁共振的综合模型。每年9月的课程将强调一个应用领域，如心脏或呼吸系统研究。在为期4年的计划中，我们计划为200名参与者提供深入学习的课程和个人培训，其他人使用我们的模型和网上教程进行自我培训，以及任何研究人员将这些发布的模型作为他们自己模型的起点。这一结果应该会增强我国在定量研究分析方面的能力，并提高我们在诊断和治疗技术进步方面的竞争力。

DESCRIPTION (provided by applicant): This application, written in response to RFA-HL-07-002, entitled Modeling for Heart, Lung, and Blood: From Cell to Organ, is to provide training in computational modeling for investigators in the spirit of the Physiome effort, which has the goal of developing quantitative biology to improve medical science from genes to health. The program will consist of 2 courses per year, workshops at meetings, web tutorials and modeling, libraries of model programs and modeling systems for free distribution, and individual trainee follow-up training programs. The central mission is to aid investigators in developing expertise in the design of efficient experimental studies and in the analysis of data using integrative physiological models. The courses focus on applying the principles of the scientific method for designing and testing hypotheses and the use of parameterization and categorization of observations for diagnosis and therapy. The coverage ranges from the development of biophysical and biochemical level modules for cellular and subcellular systems, to whole body integrative systems for cardiovascular, respiratory and hematologic systems. Via hands on modeling from the first hour of the course using JSim a powerful but easily learned simulation system handling ordinary and partial differential equations (ODE and PDEs), stochastic models, etc., participants will learn how to examine data in order to develop hypotheses, how to convert ideas into mathematical testable model-hypotheses, how to evaluate the veracity and accuracy of computer solutions, how to design critical experiments using modeling, how to analyze data by optimization techniques providing residuals and confidence ranges for parameters, and how to evaluate validity of hypotheses and iterate the hypothesis-model- experiment-validation loop. Course participants will use software such as JSim, a platform-independent simulation analysis system, and Matlab. They will learn about simulation systems suitable for solving ODEs, Gepasi, XPPAUT, etc. and other tools, e.g. Systems Biology Workbench. Participants may also choose to return for individual training or for collaborative research. Each year the June course will emphasize elemental biophysical, physiological, and biochemical module design and construction, with application to clinical research using integrative models for positron emission tomography or magnetic resonance. Each year the September course will emphasize an application area such as cardiac or respiratory studies. Over the 4-year program we plan to provide courses and individual training for 200 participants to learn in depth, for others to train themselves using our models and tutorials on the web, and for any investigator to take these published models as starting points for their own models. The result should enhance our nation's capabilities in quantitative research analysis and improve our competitiveness in the advancement of diagnostic and therapeutic techniques.