A methodological pipeline for serial-section imaging and tissue realignment for whole-brain functional and connectivity assessment.
A methodological pipeline for serial-section imaging and tissue realignment for whole-brain functional and connectivity assessment.
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DOI：
10.1016/j.jneumeth.2016.03.021
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发表时间：
2016-06-15
影响因子：
3
通讯作者：
McNaughton BL
中科院分区：
文献类型：
--
作者：
Mesina L;Wilber AA;Clark BJ;Dube S;Demecha AJ;Stark CE;McNaughton BL
了解认知和行为的神经生物学基础，以及损伤和疾病后这些过程的中断，需要对神经群体进行大规模评估，并了解其连接模式。我们提出了一个用于大规模研究啮齿动物功能和神经解剖连接的分析平台。注射逆行示踪剂，并对一部分动物进行行为测试，以驱动早期基因表达。这种方法允许用户以半自动定量方式对功能和连接进行全脑评估。在冠状面切开大脑，并获取块面的图像。使用 Matlab 软件获取并分析整个切片的宽场荧光扫描。该工具包利用开源和定制平台来适应很大程度上自动化的分析管道，其中神经元边界被自动分割，分割神经元的位置与振动切片过程中获取的相应图像共同配准，并生成整个大脑中神经示踪剂（和其他产品）的 3D 表示。目前的全脑连接测量主要针对小鼠并使用顺行示踪剂。我们对感兴趣的分段单位（例如 NeuN 标记的神经元）的关注以及对这些单位的限制措施为各种全脑分析（测量激活、连接、疾病标记等）提供了一个灵活的平台。这个开源工具包允许研究人员以 3D 方式可视化和量化全脑数据，并另外提供一个可以与用户特定的分析和方法快速集成的框架。
Understanding the neurobiological basis of cognition and behavior, and disruptions to these processes following injury and disease, requires a large-scale assessment of neural populations, and knowledge of their patterns of connectivity. We present an analysis platform for large-scale investigation of functional and neuroanatomical connectivity in the rodents. Retrograde tracers were injected and in a subset of animals behavioral tests to drive immediate-early gene expression were administered. This approach allows users to perform whole-brain assessment of function and connection in a semi-automated quantitative manner. Brains were cut in the coronal plane, and an image of the block face was acquired. Wide-field fluorescent scans of whole sections were acquired and analyzed using Matlab software. The toolkit utilized open-source and custom platforms to accommodate a largely automated analysis pipeline in which neuronal boundaries are automatically segmented, the position of segmented neurons are co-registered with a corresponding image acquired during vibratome sectioning, and a 3-D representation of neural tracer (and other products) throughout the entire brain is generated. Current whole brain connectivity measures primarily target mice and use anterograde tracers. Our focus on segmented units of interest (e.g., NeuN labeled neurons) and restricting measures to these units produces a flexible platform for a variety of whole brain analyses (measuring activation, connectivity, markers of disease, etc.). This open-source toolkit allows an investigator to visualize and quantify whole brain data in 3-D, and additionally provides a framework that can be rapidly integrated with user-specific analyses and methodologies.
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影响因子：
64.8
作者：
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影响因子：
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作者：
Bjornsson, Christopher S.;Lin, Gang;Roysam, Badrinath
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作者：
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