Moene Ivar A, Subramaniam Shankar, Darin Dmitri, Leergaard Trygve B, Bjaalie Jan G
Neural Systems and Graphics Computing Laboratory, Centre for Molecular Biology and Neuroscience & Institute of Basic Medical Sciences, University of Oslo, PO Box 1105 Blindern, N-0317 Oslo, Norway.
Neuroinformatics. 2007 Spring;5(1):35-58. doi: 10.1385/ni:5:1:35.
We present a novel system for storing and manipulating microscopic images from sections through the brain and higher-level data extracted from such images. The system is designed and built on a three-tier paradigm and provides the research community with a web-based interface for facile use in neuroscience research. The Oracle relational database management system provides the ability to store a variety of objects relevant to the images and provides the framework for complex querying of data stored in the system. Further, the suite of applications intimately tied into the infrastructure in the application layer provide the user the ability not only to query and visualize the data, but also to perform analysis operations based on the tools embedded into the system. The presentation layer uses extant protocols of the modern web browser and this provides ease of use of the system. The present release, named Functional Anatomy of the Cerebro-Cerebellar System (FACCS), available through The Rodent Brain Workbench (http:// rbwb.org/), is targeted at the functional anatomy of the cerebro-cerebellar system in rats, and holds axonal tracing data from these projections. The system is extensible to other circuits and projections and to other categories of image data and provides a unique environment for analysis of rodent brain maps in the context of anatomical data. The FACCS application assumes standard animal brain atlas models and can be extended to future models. The system is available both for interactive use from a remote web-browser client as well as for download to a local server machine.
我们提出了一种新颖的系统，用于存储和处理来自大脑切片的微观图像以及从此类图像中提取的高级数据。该系统基于三层范式进行设计和构建，为研究界提供了一个基于网络的界面，便于在神经科学研究中使用。甲骨文关系数据库管理系统能够存储与图像相关的各种对象，并为系统中存储的数据进行复杂查询提供框架。此外，紧密集成到应用层基础设施中的应用程序套件不仅为用户提供了查询和可视化数据的能力，还能基于系统中嵌入的工具执行分析操作。表示层使用现代网络浏览器的现有协议，这使得系统易于使用。当前版本名为“脑-小脑系统功能解剖学”（FACCS），可通过啮齿动物脑工作台（http://rbwb.org/）获取，针对大鼠脑-小脑系统的功能解剖学，包含这些投射的轴突追踪数据。该系统可扩展到其他神经回路和投射以及其他类别的图像数据，并为在解剖学数据背景下分析啮齿动物脑图谱提供了独特的环境。FACCS应用采用标准动物脑图谱模型，并且可以扩展到未来的模型。该系统既可供远程网络浏览器客户端进行交互式使用，也可供下载到本地服务器机器。
