Automated quantification of neuronal networks and single-cell calcium dynamics using calcium imaging.
Automated quantification of neuronal networks and single-cell calcium dynamics using calcium imaging.
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DOI：
10.1016/j.jneumeth.2015.01.020
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发表时间：
2015-03-30
影响因子：
3
通讯作者：
Meaney DF
中科院分区：
文献类型：
--
作者：
Patel TP;Man K;Firestein BL;Meaney DF
基因工程钙和膜电位指标的最新进展提供了在更大的中尺度网络（100 - 1000 +神经元）中估计单个神经元激活动力学的潜力。然而，从高速荧光成像数据中分析和可视化神经微电路的完全集成的自动化工作流程是缺乏的。在这里我们介绍荧光单神经元和网络分析包FluoroSNNAP。FluoroSNNAP是一个开源的交互式软件，在MATLAB中开发，用于自动量化单细胞钙动力学和网络活动模式的许多生物学相关特征。FluoroSNNAP集成并改进了现有的尖峰检测，同步分析和功能连接推断工具，使其对很少或没有编程知识的实验人员最有用。我们应用FluoroSNNAP来表征体外发育成熟的神经元微回路的活动模式。另外，我们强调了单细胞分析对表达微管相关蛋白tau和野生型tau的人类突变变体的混合神经元群体的表型分析的效用。与基于峰值或基于小波的检测方法相比，我们展示了使用时空独立分量分析的半自动细胞分割的性能，以及使用基于模板的算法检测钙瞬态的显着改进。我们的软件进一步实现了微电路的自动化分析，这是对现有方法的改进。我们期望这个软件的传播将促进对神经网络的全面分析，促进对健康和疾病回路的快速询问。
Recent advances in genetically engineered calcium and membrane potential indicators provide the potential to estimate the activation dynamics of individual neurons within larger, mesoscale networks (100s–1000 +neurons). However, a fully integrated automated workflow for the analysis and visualization of neural microcircuits from high speed fluorescence imaging data is lacking. Here we introduce FluoroSNNAP, Fluorescence Single Neuron and Network Analysis Package. FluoroSNNAP is an open-source, interactive software developed in MATLAB for automated quantification of numerous biologically relevant features of both the calcium dynamics of single-cells and network activity patterns. FluoroSNNAP integrates and improves upon existing tools for spike detection, synchronization analysis, and inference of functional connectivity, making it most useful to experimentalists with little or no programming knowledge. We apply FluoroSNNAP to characterize the activity patterns of neuronal microcircuits undergoing developmental maturation in vitro. Separately, we highlight the utility of single-cell analysis for phenotyping a mixed population of neurons expressing a human mutant variant of the microtubule associated protein tau and wild-type tau. We show the performance of semi-automated cell segmentation using spatiotemporal independent component analysis and significant improvement in detecting calcium transients using a template-based algorithm in comparison to peak-based or wavelet-based detection methods. Our software further enables automated analysis of microcircuits, which is an improvement over existing methods. We expect the dissemination of this software will facilitate a comprehensive analysis of neuronal networks, promoting the rapid interrogation of circuits in health and disease.
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影响因子：
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作者：
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