EpiTools: An Open-Source Image Analysis Toolkit for Quantifying Epithelial Growth Dynamics.
EpiTools: An Open-Source Image Analysis Toolkit for Quantifying Epithelial Growth Dynamics.
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DOI：
10.1016/j.devcel.2015.12.012
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发表时间：
2016-01-11
影响因子：
11.8
通讯作者：
Mao Y
中科院分区：
文献类型：
--
作者：
Heller D;Hoppe A;Restrepo S;Gatti L;Tournier AL;Tapon N;Basler K;Mao Y
上皮细胞生长并经历广泛的重排，以达到其最终的大小和形状。随着延时显微镜技术的进步，现在可以对组织生长和形态发生的动态进行成像，但对其复杂性的真正理解受到自动图像分析工具的限制，无法提取定量数据。为了克服这些限制，我们设计了一个新的开源图像分析工具包，称为EpiTools。它提供了用户友好的图形用户界面，用于精确分割和跟踪从4D共聚焦成像获得的细胞膜信号的轮廓。它是为广大读者设计的，特别是没有计算机科学背景的生物学家。定量数据提取被集成到更大的生物成像平台Icy中，以提高我们工具的可见性和可用性。我们展示了EpiTools的有用性，通过分析果蝇翅成虫盘的生长，揭示了以前被忽视的这种动态组织的特性，如细胞重排的模式。越来越多的延时数据增加了对自动图像定量的需求EpiTools是一种开源图像分析工具包，可满足这一需求EpiTools从4D成像数据中分割、跟踪和定量细胞轮廓EpiTools应用程序可深入了解果蝇翼盘中的细胞动力学延时成像数据的高通量分析需要自动图像定量软件。Heller等人创建一个用户友好的图像分析工具包EpiTools，它可以分割，跟踪和量化从4D成像获得的细胞轮廓数据。他们使用这个工具包来深入了解发育中的果蝇翅盘的细胞动力学。
Epithelia grow and undergo extensive rearrangements to achieve their final size and shape. Imaging the dynamics of tissue growth and morphogenesis is now possible with advances in time-lapse microscopy, but a true understanding of their complexities is limited by automated image analysis tools to extract quantitative data. To overcome such limitations, we have designed a new open-source image analysis toolkit called EpiTools. It provides user-friendly graphical user interfaces for accurately segmenting and tracking the contours of cell membrane signals obtained from 4D confocal imaging. It is designed for a broad audience, especially biologists with no computer-science background. Quantitative data extraction is integrated into a larger bioimaging platform, Icy, to increase the visibility and usability of our tools. We demonstrate the usefulness of EpiTools by analyzing Drosophila wing imaginal disc growth, revealing previously overlooked properties of this dynamic tissue, such as the patterns of cellular rearrangements. Increasing time-lapse data increases the demand for automated image quantification EpiTools, an open-source image analysis toolkit, addresses this need EpiTools segments, tracks, and quantifies cell contours from 4D imaging data EpiTools application provides insight into cell dynamics in the Drosophila wing disc High-throughput analysis of time-lapse imaging data requires automated image quantification software. Heller et al. create a user-friendly image analysis toolkit, EpiTools, which segments, tracks, and quantifies cell contour data obtained from 4D imaging. They use this toolkit to obtain insight into cell dynamics in the developing Drosophila wing disc.