The digital bee brain: integrating and managing neurons in a common 3D reference system
The digital bee brain: integrating and managing neurons in a common 3D reference system
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DOI：
10.3389/fnsys.2010.00030
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发表时间：
2010-01-01
影响因子：
3
通讯作者：
Menzel, Randolf
中科院分区：
文献类型：
--
作者：
Rybak, Juergen;Kuss, Anja;Menzel, Randolf
蜜蜂标准脑（HSB）作为一种交互式工具，用于关联蜜蜂脑神经元的形态，并为功能和书目属性提供参考系统（http：//www.neurobiologie.fu-berlin.de/beebrain/）。最终目标不仅是记录从不同大脑收集的神经元的形态网络特性，而且是为神经元相关数据库建立图形用户界面。在这里，我们回顾了目前的方法和协议，用于将神经元重建到HSB。我们的注册协议包括两个单独的步骤，适用于从双通道共聚焦显微镜扫描的成像数据：（1）重建的神经元，促进了基于阈值分割的神经元的骨架的自动提取，和（2）半自动的3D分割的neuropil和他们的注册与HSB。HSB中神经元的整合是通过将步骤（2）中计算的变换应用于步骤（1）的重构神经元来执行的。该协议在用户交互时间分割过程方面的最关键问题-通过使用基于模型的分割过程得到了大幅改善。此外，底层的统计形状模型（SSM）允许可视化和分析的特征变化，在大的蜜蜂大脑数据集。由多个神经元组成的神经网络的解剖结构被注册到HSB中，通过描绘3D重建以及语义信息来可视化，目的是整合来自多个来源（电生理学，成像，免疫细胞化学，分子生物学）的数据。最终，这将允许用户指定细胞类型并检索它们的形态沿着生理表征。
The honeybee standard brain (HSB) serves as an interactive tool for relating morphologies of bee brain neurons and provides a reference system for functional and bibliographical properties (http://www.neurobiologie.fu-berlin.de/beebrain/). The ultimate goal is to document not only the morphological network properties of neurons collected from separate brains, but also to establish a graphical user interface for a neuron-related data base. Here, we review the current methods and protocols used to incorporate neuronal reconstructions into the HSB. Our registration protocol consists of two separate steps applied to imaging data from two-channel confocal microscopy scans: (1) The reconstruction of the neuron, facilitated by an automatic extraction of the neuron's skeleton based on threshold segmentation, and (2) the semi-automatic 3D segmentation of the neuropils and their registration with the HSB. The integration of neurons in the HSB is performed by applying the transformation computed in step (2) to the reconstructed neurons of step (1). The most critical issue of this protocol in terms of user interaction time the segmentation process - is drastically improved by the use of a model-based segmentation process. Furthermore, the underlying statistical shape models (SSM) allow the visualization and analysis of characteristic variations in large sets of bee brain data. The anatomy of neural networks composed of multiple neurons that are registered into the HSB are visualized by depicting the 3D reconstructions together with semantic information with the objective to integrate data from multiple sources (electrophysiology, imaging, immunocytochemistry, molecular biology). Ultimately, this will allow the user to specify cell types and retrieve their morphologies along with physiological characterizations.