SarcOptiM for ImageJ: high-frequency online sarcomere length computing on stimulated cardiomyocytes
SarcOptiM for ImageJ: high-frequency online sarcomere length computing on stimulated cardiomyocytes
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DOI：
10.1152/ajpcell.00094.2016
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发表时间：
2016-08-01
影响因子：
5.5
通讯作者：
Maupoil, Veronique
中科院分区：
文献类型：
--
作者：
Pasqualin, Come;Gannier, Francois;Maupoil, Veronique
准确测量心肌细胞收缩是科学家研究心脏生理学和涉及收缩损伤的疾病的生理病理学的关键问题。心肌细胞收缩可以通过测量肌节长度来量化，但几乎没有可用的工具，而且没有一个是自由分布的。我们为美国国立卫生研究院开发的ImageJ/斐济图像分析平台开发了一个插件(SarcOptiM)。SarcOptiM通过对ImageJ中捕获或显示的视频帧进行快速傅立叶变换分析来计算肌节长度，因此不依赖于专用摄像机。它可以实时工作，也可以离线工作，后者克服了旋转运动或与位移相关的伪影。SarcOptiM包括心肌细胞收缩的模拟器和视频生成器。采集参数，如像素大小和相机的帧速率，用大鼠心肌细胞的实验记录和合成视频进行测试。它是免费分发的，并且它的源代码是可用的。它可以在Windows、Mac或Linux操作系统下运行。摄像头速度是限制因素，因为该算法可以在10 kHz的帧速率下计算在线肌节缩短。总之，SarcOptiM是研究包括人类在内的所有物种的心肌细胞收缩的免费和有效的用户友好的工具。
Accurate measurement of cardiomyocyte contraction is a critical issue for scientists working on cardiac physiology and physiopathology of diseases implying contraction impairment. Cardiomyocytes contraction can be quantified by measuring sarcomere length, but few tools are available for this, and none is freely distributed. We developed a plug-in (SarcOptiM) for the ImageJ/Fiji image analysis platform developed by the National Institutes of Health. SarcOptiM computes sarcomere length via fast Fourier transform analysis of video frames captured or displayed in ImageJ and thus is not tied to a dedicated video camera. It can work in real time or offline, the latter overcoming rotating motion or displacement-related artifacts. SarcOptiM includes a simulator and video generator of cardiomyocyte contraction. Acquisition parameters, such as pixel size and camera frame rate, were tested with both experimental recordings of rat ventricular cardiomyocytes and synthetic videos. It is freely distributed, and its source code is available. It works under Windows, Mac, or Linux operating systems. The camera speed is the limiting factor, since the algorithm can compute online sarcomere shortening at frame rates > 10 kHz. In conclusion, SarcOptiM is a free and validated user-friendly tool for studying cardiomyocyte contraction in all species, including human.