Waxholm Space for Rodent Neuroinformatics

啮齿动物神经信息学沃克斯霍姆空间

• 批准号: 9338327
• 负责人: JAMES C GEE
• 金额: $ 64.22万
• 依托单位: UNIVERSITY OF PENNSYLVANIA
• 依托单位国家: 美国
• 财政年份: 2016
• 资助国家: 美国
• 起止时间: 2016-09-01 至 2020-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9338327
• 关键词: Address; Adult; Anatomy; Animals; Ants; Atlases; Basic Science; Brain; Brain Mapping; Brain imaging; C57BL/6 Mouse; Collection; Communities; Computer software; Data; Data Collection; Development; Disease; Educational workshop; Genetic Variation; Goals; Health; Health Sciences; Histologic; Human; Image Analysis; Imaging technology; Institutes; International; Lead; Location; Measurement; Methodology; Methods; Modality; Modeling; Modernization; Mus; National Institute of Mental Health; Neurosciences; Neurosciences Research; Outcome; Protocols documentation; Publications; Rattus; Research Infrastructure; Research Personnel; Resolution; Resources; Rodent; S-nitro-N-acetylpenicillamine; Science; Scientist; Site; Source; Speed; Standardization; Structure; System; Tennessee; Training; Universities; base; brain research; computerized tools; data resource; data sharing; digital; experience; experimental study; graphical user interface; high resolution imaging; image registration; imaging Segmentation; imaging modality; improved; interest; interoperability; member; neuroinformatics; next generation; open source; programs; repaired; technological innovation; tool; user-friendly

Summary Data collections of every variety now abound and continue to grow in the neurosciences but their lack of acces- sibility, especially in an integrative way, to the average investigator presents a persistent and vexing challenge to the field and ultimately limits the potential impact of these resources. To address this undesirable state of the science, the International Neuroinformatics Coordinating Facility (INCF, http://incf.org/) established the Digital At- lasing Program to formulate standards and practices for atlas-based data sharing, and to instantiate these, for the rodent brain initially, in infrastructure, systems and methods capable of serving the scientific goals of the commu- nity. A central outcome has been the development and prototypical implementation of Waxholm Space (WHS), a standard coordinate system for the adult C57BL/6 mouse brain, and its underlying digital atlasing infrastructure (DAI) that allows researchers to query any data resource registered to WHS as an atlas hub. As with its counter- part in human brain studies, the Talairach coordinate system, an essential requirement is the ability to normalize user data into standardized space; the inverse transformation allows standardized data to be accessed in user’s native space. This project brings together leading expertise in brain atlasing at Penn and Duke to develop, evaluate and deploy this critical functionality under community support that would make possible the WHS-based coordination of rodent brain research, which would allow access to data, tools, and analyses from multiple sources. Toward this end, an improved multi-modality atlas defining the canonical coordinate system of WHS will be developed for the mouse and rat, expanding both the range of experimental studies possible and the types of analyses that may be applied to these in the field. This first-of-its-kind analytic capability will be enabled by a suite of tools that accommodate a variety of user backgrounds and needs. These developments will be evaluated through their application to real- world use cases and their practical integration with major community resources. The successful completion of this project will fully realize the value of Waxholm Space in rodent neuroscience research and lead to immediate and broad impact on the field.

总结 各种各样的数据收集现在比比皆是，并继续在神经科学中增长，但他们缺乏访问权限- 能力，特别是在综合的方式，对一般的调查人员提出了一个持久的和令人烦恼的挑战 这将限制这些资源的潜在影响。为了解决这种不受欢迎的状态， 国际神经信息学协调机构（INCF，http：//incf.org/）建立了数字化AT- 激光计划，为基于地图集的数据共享制定标准和实践，并将其实例化， 啮齿动物的大脑最初，在基础设施，系统和方法能够服务于科学目标的通信， nity。一个核心成果是瓦克斯霍尔姆空间（WHS）的开发和原型实施， 成年C57 BL/6小鼠大脑的标准坐标系及其基础数字图谱基础设施 (DAI)它允许研究人员查询作为地图集中心注册到WHS的任何数据资源。就像它的反- 在人类大脑研究的一部分，Talairach坐标系，一个基本要求是能够规范化 将用户数据转换为标准化空间;逆变换允许在用户的 本土空间 该项目汇集了宾夕法尼亚大学和杜克大学在大脑图谱方面的领先专业知识来开发、评估和部署 社区支持下的这一关键功能，将使基于WHS的啮齿动物协调成为可能， 大脑研究，这将允许从多个来源获得数据，工具和分析。为此， 将为小鼠开发定义WHS规范坐标系的改进的多模态图谱 和大鼠，扩大了可能的实验研究范围和可能应用的分析类型 这些在外地。这一首创的分析能力将通过一套工具来实现， 不同的用户背景和需求。这些发展将通过其应用于真实的进行评估- 世界用例及其与主要社区资源的实际整合。圆满完成 该项目将充分实现Waxholm Space在啮齿动物神经科学研究中的价值， 并对该领域产生广泛影响。