FibrilTool, an ImageJ plug-in to quantify fibrillar structures in raw microscopy images
FibrilTool, an ImageJ plug-in to quantify fibrillar structures in raw microscopy images
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DOI：
10.1038/nprot.2014.024
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发表时间：
2014-02-01
期刊：
影响因子：
14.8
通讯作者：
Hamant, Olivier
中科院分区：
文献类型：
--
作者：
Boudaoud, Arezki;Burian, Agata;Hamant, Olivier
细胞生物学在很大程度上依赖于纤维结构（例如细胞骨架）的行为，但对其在组织中的行为的分析通常仍然是定性的。图像分析工具已被开发来量化这种行为，但它们通常涉及图像预处理阶段，这可能会导致输出偏差和/或需要特定的软件。在这里，我们描述 FibrilTool，一个基于向列张量概念的 ImageJ 插件，它可以直接从任何形式的显微镜获得的原始图像中定量描述纤维阵列的各向异性及其在细胞中的平均方向。 FibrilTool 已在微管、肌动蛋白和纤维素微纤维上进行了验证，但它也可能有助于分析其他纤维结构，例如胶原蛋白或各种材料的质地。该工具基于 ImageJ，因此科学界可以免费使用它，并且不需要特定的计算设置。该工具可在几秒钟内提供给定感兴趣区域 (ROI) 中光纤阵列的平均方向和各向异性。
Cell biology heavily relies on the behavior of fibrillar structures, such as the cytoskeleton, yet the analysis of their behavior in tissues often remains qualitative. Image analysis tools have been developed to quantify this behavior, but they often involve an image pre-processing stage that may bias the output and/or they require specific software. Here we describe FibrilTool, an ImageJ plug-in based on the concept of nematic tensor, which can provide a quantitative description of the anisotropy of fiber arrays and their average orientation in cells, directly from raw images obtained by any form of microscopy. FibrilTool has been validated on microtubules, actin and cellulose microfibrils, but it may also help analyze other fibrillar structures, such as collagen, or the texture of various materials. The tool is ImageJ-based, and it is therefore freely accessible to the scientific community and does not require specific computational setup. The tool provides the average orientation and anisotropy of fiber arrays in a given region of interest (ROI) in a few seconds.