SenseLab: Integration of Multidisciplinary Sensory Data

SenseLab：多学科感官数据整合

基本信息

批准号：
9302332
负责人：
MICHAEL L HINES
金额：
$ 66.5万
依托单位：
YALE UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2009
资助国家：
美国
起止时间：
2009-08-01 至 2019-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/9302332
关键词：
3-Dimensional Address Architecture Archives Biological Models Brain Brain Diseases Brain region Cells Collaborations Communities Computer Simulation Data Databases Development Environment Foundations Functional disorder Funding Gene Proteins Generations Goals Growth Image Individual Informatics International Internet Laboratories Lead Medical Informatics Medical center Modeling Molecular Models Morphology Mus Nervous system structure Neurons Neurophysiology - biologic function Neurosciences Odors Olfactory Pathways Ontology Pattern Pattern Recognition Process Pythons Research Research Infrastructure Research Support Resources Role Sensory Signal Transduction Smell Perception Synapses System Testing Work base clinically relevant computational neuroscience computer cluster computer studies data integration data modeling design experimental study granule cell information framework innovation insight interoperability mitral cell molecular modeling multidisciplinary nervous system disorder neuroinformatics novel olfactory bulb olfactory receptor programs public health relevance relating to nervous system response simulation supercomputer tool

项目摘要

DESCRIPTION (provided by applicant): The overall aim of SenseLab is to integrate multidisciplinary neuroscience data by means of innovative databases and tools, using the olfactory system as a model which can generalize across the nervous system. For this purpose we have created 8 interoperable databases that serve growing user communities for experimental data and computational models at multiple levels, from genes and proteins through neurons to circuits. SenseLab has three foundations: neuroinformatics directed by Perry Miller, experimental data by Gordon Shepherd, and computational modeling by Michael Hines. One focus will be on ModelDB, which is growing strongly with over 800 computational models. We will build new functionality to enable the models to be explored with new tools including ModelSearch and ModelView. We will support an emerging field of brain microcircuits through MicrocircuitDB, which currently contains over 200 models. A new BrainPathPhysiolDB will contain over 100 models of neuron pathophysiology with clinical relevance. A new ORModelDB will add molecular models to the Olfactory Receptor Database (ORDB) to enhance the utility of the 14,000+ chemosensory genes and proteins that it currently contains. To enhance interoperation we will continue to work closely with the Neuroscience Information Framework (NIF) and the International Neuroinformatics Coordination Facility (INCF) to develop a general ontology for neurons and microcircuits. Support by Dr. Miller and his colleagues in the Yale Center for Medical Informatics will be critical, and enable SenseLab to continue developing its state-of-the-art infrastructure and tools for database construction and interoperation. We will explore innovative ways in which individual SenseLab databases can be designed, adapted, and/or enhanced to facilitate robust interoperation with other neuroscience databases, tools, and resources such as the NIF. In our experimental and computational studies we will develop a new generation of large-scale microcircuit models which realistically represent the detailed 3 dimensional morphology of multiple neuron types with overlapping dendritic fields and distributed synaptic interactions. The NEURON simulator, developed by Dr. Hines, is unique in its capability for computing this model on massively parallel cluster computers. We will test the model with experimental data from an ongoing collaboration with the lab of Dr. Justus Verhagen, and will share the model with other labs working on the olfactory bulb and other systems. In summary, this multidisciplinary and multilevel approach using integration of experimental data into realistic computational simulations should serve as a model for analysis of olfactory processing and for current attempts at data integration throughout the brain.

描述（由申请人提供）：Senselab的总体目的是使用创新的数据库和工具来整合多学科的神经科学数据，以使用嗅觉系统作为可以在整个神经系统中推广的模型。为此，我们创建了8个可互操作的数据库，这些数据库为成长中的用户社区服务于多个级别的实验数据和计算模型，从基因和蛋白质到神经元到电路。 Senselab具有三个基础：佩里·米勒（Perry Miller）指导的神经信息学，戈登·谢泼德（Gordon Shepherd）的实验数据和迈克尔·海因斯（Michael Hines）的计算建模。一个重点将放在模型B上，该模型以800多个计算模型的强劲增长。我们将构建新的功能，以使模型能够使用新工具（包括Modelsearch and ModelView）进行探索。我们将通过MicroCircuitDB支持大脑微电路的新兴领域，该领域目前包含200多个模型。新的BrainpathyoldB将包含具有临床相关性的100多种神经元病理生理模型。一个新的OrmodeldB将在嗅觉受体数据库（ORDB）中添加分子模型，以增强其当前含有14,000多种化学渗透基因和蛋白质的实用性。为了增强互动，我们将继续与神经科学信息框架（NIF）和国际神经信息协调设施（INCF）紧密合作，以开发用于神经元和微电路的一般本体论。米勒博士及其同事在耶鲁大学医学信息学中心的支持至关重要，并使Senselab能够继续开发其最先进的基础设施以及用于数据库构建和互操作的工具。我们将探讨可以设计，适应和/或增强单个Senselab数据库的创新方式，以促进与其他神经科学数据库，工具和资源（例如NIF）的稳健互动。在我们的实验和计算研究中，我们将开发新一代的大规模微电路模型，这些模型实际上代表了多种神经元类型的详细3维形态，具有重叠的树突状场和分布式突触相互作用。由Hines博士开发的神经元模拟器在计算大规模并行群集计算机上计算该模型的能力方面是独一无二的。我们将通过与Justus Verhagen博士的实验室进行的实验数据测试模型，并将与其他从事嗅球和其他系统的实验室共享模型。总而言之，这种使用实验数据集成到现实的计算模拟中的多学科和多层次方法应作为分析嗅觉处理以及整个大脑数据集成的当前尝试的模型。