Micro3D: Computer program for three-dimensional reconstruction, visualization, and analysis of neuronal populations and brain regions
Micro3D: Computer program for three-dimensional reconstruction, visualization, and analysis of neuronal populations and brain regions
复制标题
DOI：
10.1080/00207450500506025
复制
发表时间：
2006-04-01
影响因子：
2.2
通讯作者：
Pettersen, C
中科院分区：
文献类型：
--
作者：
Bjaalie, JG;Leergaard, TB;Pettersen, C
本文介绍了一个计算机程序，Micro 3D，设计用于三维重建，可视化和分析的坐标数据（点和百合）记录从连续切片。该软件主要用于研究大脑区域的份额和尺寸（轮廓线数据）以及细胞元素的分布，如神经元细胞体或轴突终末场标记的束跟踪技术（点数据）。所记录的组织成分同样可以使用其他技术进行标记，唯一的要求是将收集的数据保存为x，y，z坐标。数据通常从图像组合计算机化显微镜系统或图像分析系统导入。例如Neurolucida（Microelectronics Field，Colchester，VT）或analySIS（Soft Imaging System，GmbH，Munster，德国）。系统要求是在Micro 3D中运行Linux重建的PC可以实时旋转和缩放，并提交透视图和立体成像。表面是重新合成的基础上堆叠的轮廓线。剪切用于定义重建的截面独立细分。点层的弯曲片材的展平（例如，层中的神经元）便于检查复杂的分布模式。Micro 3D计算颜色编码的密度图。还提供了将来自不同重建的数据转换为通用坐标系的机会。这篇文章演示了使用Micro 3D来可视化躯体感觉和听觉系统中复杂的神经元分布模式。该软件可根据NeSys主页（http：//www.nesys.uio.no/）和啮齿动物大脑网站（http：//www.rbwb.org/）上公布的条件下载。
This article presents a computer program, Micro3D, designed for 3-D reconstruction, visualization, and analysis of coordinate-data (points and lilies) recorded from serial sections. The software has primarily been used for studying shares and dimension of brain regions (contour line data) and distributions of cellular elements such as neuronal cell bodies or axonal terminal fields labeled with tract-tracing techniques (point data). The tissue elements recorded could equally well be labeled with use of other techniques, the only requirement being that the data collected are saved as x,y,z coordinates. Data are typically imported from image-combining computerized microscopy systems or image analysis systems. such as Neurolucida (MicroBrightField, Colchester, VT) or analySIS (Soft Imaging System, GmbH, Munster, Germany). System requirements are a PC running LINUX Reconstructions in Micro3D may be rotated and zoomed in real-time, and submitted to perspective viewing and stereo-imaging. Surfaces are re-synthesized on the basis of stacks of contour lines. Clipping is used for defining section-independent subdivisions of the reconstruction. Flattening of curved sheets of points layers (e.g., neurons in a layer) facilitates inspection of complicated distribution patterns. Micro3D computes color-coded density maps. Opportunities for translation of data from different reconstructions into common coordinate systems are also provided. This article demonstrates the use of Micro3D for visualization of complex neuronal distribution patterns in somatosensory and auditory systems. The software is available for download on conditions posted at the NeSys home pages (http://www.nesys.uio.no/) and at The Rodent Brain Workbench (http://www.rbwb.org/).