Computational Core

计算核心

基本信息

批准号：
10016200
负责人：
SEAN X SUN
金额：
$ 25.29万
依托单位：
JOHNS HOPKINS UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2016
资助国家：
美国
起止时间：
2016-08-29 至 2022-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10016200
关键词：
3-Dimensional Adhesives Affect Algorithms Arizona Automobile Driving Behavior Biochemical Biochemical Reaction Biochemistry Biological Biomechanics Biophysics Cell Shape Cell physiology Cells Chemistry Clinical Communities Complex Computational Biology Computational Technique Computer software Computers Connective Tissue Coupling DNA Sequence Alteration Data Collection Development Diffusion Environment Epithelial Epithelial Cells Epithelium Equation Experimental Models Extracellular Matrix Feedback Future Genome Geometry Grain Human Light Malignant Neoplasms Mechanics Methods Modeling Modernization Molecular Mutation Neoplasm Metastasis Oncology Outcome Postdoctoral Fellow Publications Reaction Research Research Personnel Running Signal Pathway Signal Transduction System The Sun Theoretical model Therapeutic Intervention Time Tissues Universities Work anticancer research biochemical model cancer cell cell behavior cell motility computational platform computer framework experimental study extracellular graduate student insight intracellular protein transport meetings member migration physical science simulation software development symposium theories two-dimensional user friendly software

项目摘要

Summary - Computational Core The proposed computational core will provide theory and modeling hands-on expertise to all of the projects in the Center. At any time, there will be at least one postdoc or graduate student of the Core actively interfacing with each project. Regular monthly meetings between project PIs and the modeling core will help to clarify the experimental and modeling objectives of each project for enhanced integration. Significance of experimental and modeling results will be discussed at these meetings, and future experiments and modeling work will be planned. The computational core will also actively develop user-friendly software packages for assisting data collection, as well as Matlab routines and software for running simulations by non-experts. Tutorials on modeling concepts, modeling results, and developed software will be conducted at center-wide retreats as well as center symposia twice a year. All of the developed software packages will be made available to researchers in the Center as well as the larger community. The aims of the computational aims are: (1) Develop a 3D computational framework for simulating single-cell migration simultaneously with reaction-diffusion-advection equations for complex biochemical signaling pathways. (2) Construct a computational platform for simulating discrete numbers of interacting motile cells. Incorporate key physical parameters as well as coarse-grained modeling of biochemical signaling pathways. (3) Bridge from discrete models of single cells to 3D continuum algorithms for simulating the migration of multicellular groups.

总结 - 计算核心拟议的计算核心将为所有项目提供理论和建模实践专业知识中心。任何时候，都会有至少一名核心博士后或研究生积极参与交流与每个项目。项目 PI 和建模核心之间每月定期举行会议将有助于澄清每个项目的实验和建模目标，以增强集成。实验意义和建模结果将在这些会议上进行讨论，未来的实验和建模工作将计划。计算核心还将积极开发用户友好的软件包来辅助数据集合，以及用于非专家运行模拟的 Matlab 例程和软件。教程建模概念、建模结果和开发的软件也将在中心范围内的务虚会上进行作为中心研讨会每年两次。所有开发的软件包将提供给研究人员在中心以及更大的社区。计算目标的目的是： (1) 开发 3D 用于同时模拟单细胞迁移和反应-扩散-平流的计算框架复杂生化信号通路的方程。 (2) 构建模拟计算平台离散数量的相互作用的运动细胞。纳入关键物理参数以及粗粒度参数生化信号通路建模。 (3) 从单细胞离散模型到 3D 连续体的桥梁模拟多细胞群体迁移的算法。