PARALLEL SIMULATION OF LARGE SCALE NEURONAL MODELS

大规模神经元模型的并行模拟

• 批准号: 6186179
• 负责人: NIGEL H GODDARD
• 金额: $ 23.46万
• 依托单位: CARNEGIE-MELLON UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 1997
• 资助国家: 美国
• 起止时间: 1997-09-25 至 2002-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6186179
• 关键词: artificial intelligence; bioimaging /biomedical imaging; biomedical automation; biotechnology; cerebellar cortex; computational neuroscience; computer network; computer program /software; computer simulation; computer system design /evaluation; hippocampus; mathematical model; neural information processing; neurotransmitters; parallel processing; supercomputer; thalamocortical tract; vocabulary development for information system

DESCRIPTION (Taken from application abstract): Over the last decade computational modeling has become central to neurobiology. While much of this work has focused on cellular and sub-cellular processes, the last few years have seen increasing interest in systems level models and in integrative accounts that span data from the subcellular to behavioral levels. Our proposal, in summary, is to extend existing work in parallel discrete event simulation (PDES) and integrate it with existing work on compartmental modeling environments, to produce a software environment which has comprehensive support for modeling large scale, highly structured networks of biophysically realistic cells; and which can efficiently exploit the full range of parallel platforms, including the largest parallel supercomputers, for simulation of these network models, which integrate information about the nervous system from sub-cellular to the whole-brain level. Because of the scale of the models needed at this level of integration, advanced parallel computing is required. The critical technical insight upon which this work rests is that neuronal modeling at the systems level can often be reduced to a form of discrete event simulation in which single cells are node functions and voltage spikes are events. Three neuroscience modeling projects, will mold, test, and utilize these new capabilities in investigations of system-level models of the nervous system which integrate behavioral, anatomical and physiological data on a scale that exceeds current simulation capabilities. In collaboration with computer scientists at Pittsburgh Supercomputing Center and UCLA, neuroscientists at University of Virginia, the Born-Bunge Foundation, Antwerp, and the Salk Institute, and developers of the NEURON and GENESIS packages, these tools will be developed and made available to the neuroscience community. The software development aims include 1) investigation of a portable, PDES system capable of running efficiently on diverse parallel platforms, 2) development of interfaces to the PDES for NEURON and GENESIS allowing models developed in those packages to be scaled up, 3) investigation of a network specification language for neuronal models, and associated a visualization interface, to facilitate investigation of systems-level models, 4) sufficiently robust and well-documented software for download and installation at other sites. The three neuroscience projects will guide development of the software tools and use the tools for investigation of large-scale models of cerebellum, hippocampus and thalamocortical circuits.

描述（取自应用程序摘要）：过去十年 计算建模已成为神经生物学的核心。 而很多 这项工作集中于细胞和细胞过程，最后几个 多年以来，人们对系统级别模型和对 从亚细胞到行为的综合帐户 水平。 总而言之，我们的建议是并行扩展现有工作 离散事件仿真（PDE）并将其与现有工作集成 隔间建模环境，生成一个软件环境 为大规模建模，高度结构化建模 生物物理上逼真的细胞网络；哪些可以有效利用 所有的平行平台，包括最大的平行平台 超级计算机，用于模拟这些网络模型，这些网络模型集成 有关从细胞到全脑的神经系统的信息 等级。 因为在此级别所需的模型规模 需要集成，高级并行计算。 关键 这项工作所基于的技术见解是神经元建模 系统级别通常可以简化为离散事件的形式 单元是节点函数和电压尖峰的模拟是 事件。 三个神经科学建模项目将塑造，测试和利用这些新的 神经系统系统级模型的调查功能 在规模上整合行为，解剖学和生理数据 这超出了当前的模拟功能。 与 匹兹堡超级计算中心和UCLA的计算机科学家， 弗吉尼亚大学的神经科学家，诞生的基金会， 安特卫普（Antwerp）和萨尔克研究所（Salk Institute）以及神经元和创世纪的开发商 包裹，这些工具将被开发并提供给 神经科学社区。 软件开发的目的包括1） 对便携式PDES系统的调查，能够有效运行 多样的平行平台，2）开发PDE的接口 神经元和创世纪允许在这些包装中开发模型缩放 向上，3）调查神经元网络规范语言 模型和关联的可视化接口，以促进 调查系统级模型，4）足够健壮的 有据可查的软件在其他站点下载和安装。 这 三个神经科学项目将指导软件工具的开发和 使用工具调查小脑大型模型， 海马和丘脑皮层电路。