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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的总体目标是通过创新的数据库和工具整合多学科神经科学数据，使用嗅觉系统作为可以在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，为不断增长的用户社区提供多层次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有三个基础：神经信息学由佩里米勒指导，实验数据由戈登谢泼德和计算模型由迈克尔海因斯。其中一个重点将是ModelDB，它正在以超过800个计算模型强劲增长。我们将构建新的功能，使模型能够使用新的工具（包括ModelSearch和ModelView）进行探索。我们将通过MicrocircuitDB支持一个新兴的大脑微电路领域，该数据库目前包含200多个模型。新的BrainPathPhysiolDB将包含100多个具有临床相关性的神经元病理生理学模型。一个新的ORModelDB将向嗅觉受体数据库（ORR B）添加分子模型，以增强其目前包含的14，000多个化学感受基因和蛋白质的实用性。为了加强互操作性，我们将继续与神经科学信息框架（NIF）和国际神经信息学协调机构（INCF）密切合作，为神经元和微电路开发通用本体。米勒博士和他在耶鲁大学医学信息中心的同事们的支持将是至关重要的，并使SenseLab能够继续开发其最先进的基础设施和工具，用于数据库建设和互操作。我们将探索创新的方法，在这些方法中，可以设计、调整和/或增强单个SenseLab数据库，以促进与其他神经科学数据库、工具和资源（如NIF）的强大互操作。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，它真实地代表了多种神经元类型的详细三维形态，具有重叠的树突状区域和分布式突触相互作用。由Hines博士开发的NEURON模拟器在大规模并行集群计算机上计算该模型的能力方面是独一无二的。我们将使用与Justus Verdegli博士实验室正在进行的合作的实验数据来测试该模型，并将与其他研究嗅球和其他系统的实验室共享该模型。总之，这种多学科和多层次的方法，使用的实验数据整合到现实的计算模拟应该作为一个模型的嗅觉处理的分析和目前的尝试在整个大脑的数据整合。