PeakCaller: an automated graphical interface for the quantification of intracellular calcium obtained by high-content screening.
PeakCaller: an automated graphical interface for the quantification of intracellular calcium obtained by high-content screening.
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DOI：
10.1186/s12868-017-0391-y
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发表时间：
2017-10-16
期刊：
影响因子：
2.4
通讯作者：
Nestor MW
中科院分区：
文献类型：
--
作者：
Artimovich E;Jackson RK;Kilander MBC;Lin YC;Nestor MW
细胞内钙离子是一种重要的离子，参与神经元多种功能的调控。从调节细胞周期和增殖到启动信号级联和调节突触前神经递质释放，钙活性的浓度和时间决定着神经元的功能和命运。钙瞬变的变化可用于高通量筛选应用中，作为神经元成熟度的基本测量，特别是在源自干细胞的发育中或未成熟神经元培养物中。使用人类诱导多能干细胞衍生的神经元和解离的小鼠皮层神经元与钙指示剂Fluo-4相结合，我们证明了PeakCaller在基础和诱导条件下与常用的PeakCaller算法相比，减少了自动峰调用中的I型和II型错误。在这里，我们描述了PeakCaller，一种新的MATLAB脚本和图形用户界面的定量细胞内钙瞬变神经元培养。PeakCaller允许用户设置峰值参数和平滑算法，以最佳地拟合其数据集。这种新的分析脚本将允许钙测量的自动化，是对细胞内钙的高通量测量感兴趣的研究人员的强大软件工具。
Intracellular calcium is an important ion involved in the regulation and modulation of many neuronal functions. From regulating cell cycle and proliferation to initiating signaling cascades and regulating presynaptic neurotransmitter release, the concentration and timing of calcium activity governs the function and fate of neurons. Changes in calcium transients can be used in high-throughput screening applications as a basic measure of neuronal maturity, especially in developing or immature neuronal cultures derived from stem cells. Using human induced pluripotent stem cell derived neurons and dissociated mouse cortical neurons combined with the calcium indicator Fluo-4, we demonstrate that PeakCaller reduces type I and type II error in automated peak calling when compared to the oft-used PeakFinder algorithm under both basal and pharmacologically induced conditions. Here we describe PeakCaller, a novel MATLAB script and graphical user interface for the quantification of intracellular calcium transients in neuronal cultures. PeakCaller allows the user to set peak parameters and smoothing algorithms to best fit their data set. This new analysis script will allow for automation of calcium measurements and is a powerful software tool for researchers interested in high-throughput measurements of intracellular calcium.
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