High-throughput image analysis of tumor spheroids: a user-friendly software application to measure the size of spheroids automatically and accurately.
High-throughput image analysis of tumor spheroids: a user-friendly software application to measure the size of spheroids automatically and accurately.
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DOI：
10.3791/51639
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发表时间：
2014-07-08
期刊：
影响因子：
--
通讯作者：
Xu EY
中科院分区：
文献类型：
--
作者：
Chen W;Wong C;Vosburgh E;Levine AJ;Foran DJ;Xu EY
三维（3D）肿瘤球体作为药物发现的体外模型的应用越来越多，需要在药物筛选的每一步，包括大规模的图像分析，他们适应大规模的筛选格式。目前还没有现成的免费图像分析软件来满足这种大规模格式。大多数现有方法涉及手动绘制成像的3D球体的长度和宽度，这是一个繁琐且耗时的过程。本研究提出了一种高通量的图像分析软件应用程序- SpheroidSizer，它自动准确地测量成像的3D肿瘤球体的长轴和短轴长度;计算每个单独的3D肿瘤球体的体积;然后将结果以两种不同的形式输出到电子表格中，以便在随后的数据分析中进行操作。该软件的主要优点是其强大的图像分析应用程序，适用于大量图像。它提供高通量计算和质量控制工作流程。在最低配置的笔记本电脑上，处理1，000张图像的估计时间约为15分钟，在多核性能工作站上约为1分钟。图形用户界面（GUI）也是为了方便质量控制而设计的，用户可以手动覆盖计算机结果。该软件中使用的关键方法改编自活动轮廓算法，也称为Snakes，该算法特别适用于具有不均匀照明和嘈杂背景的图像，这些图像通常困扰着高通量屏幕中的自动成像处理。免费的“手动初始化”和“手绘”工具为SpheroidSizer处理各种类型的球体和不同质量的图像提供了灵活性。这款高通量图像分析软件显著减少了劳动力并加快了分析过程。该软件的实现有利于三维肿瘤球体成为工业界和学术界药物筛选的常规体外模型。
The increasing number of applications of three-dimensional (3D) tumor spheroids as an in vitro model for drug discovery requires their adaptation to large-scale screening formats in every step of a drug screen, including large-scale image analysis. Currently there is no ready-to-use and free image analysis software to meet this large-scale format. Most existing methods involve manually drawing the length and width of the imaged 3D spheroids, which is a tedious and time-consuming process. This study presents a high-throughput image analysis software application – SpheroidSizer, which measures the major and minor axial length of the imaged 3D tumor spheroids automatically and accurately; calculates the volume of each individual 3D tumor spheroid; then outputs the results in two different forms in spreadsheets for easy manipulations in the subsequent data analysis. The main advantage of this software is its powerful image analysis application that is adapted for large numbers of images. It provides high-throughput computation and quality-control workflow. The estimated time to process 1,000 images is about 15 min on a minimally configured laptop, or around 1 min on a multi-core performance workstation. The graphical user interface (GUI) is also designed for easy quality control, and users can manually override the computer results. The key method used in this software is adapted from the active contour algorithm, also known as Snakes, which is especially suitable for images with uneven illumination and noisy background that often plagues automated imaging processing in high-throughput screens. The complimentary “Manual Initialize” and “Hand Draw” tools provide the flexibility to SpheroidSizer in dealing with various types of spheroids and diverse quality images. This high-throughput image analysis software remarkably reduces labor and speeds up the analysis process. Implementing this software is beneficial for 3D tumor spheroids to become a routine in vitro model for drug screens in industry and academia.
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影响因子：
12.3
作者：
Carpenter AE;Jones TR;Lamprecht MR;Clarke C;Kang IH;Friman O;Guertin DA;Chang JH;Lindquist RA;Moffat J;Golland P;Sabatini DM
通讯作者：
Sabatini DM
影响因子：
10.6
作者：
Chan, TF;Vese, LA
通讯作者：
Vese, LA
影响因子：
5.8
作者：
Monazzam, Azita;Razifar, Pasha;Bergstrom, Mats
通讯作者：
Bergstrom, Mats
DOI：
10.7863/jum.2010.29.6.891
发表时间：
2010-06
期刊：
Journal of ultrasound in medicine : official journal of the American Institute of Ultrasound in Medicine
影响因子：
--
作者：
Ayers GD;McKinley ET;Zhao P;Fritz JM;Metry RE;Deal BC;Adlerz KM;Coffey RJ;Manning HC
通讯作者：
Manning HC
影响因子：
19.5
作者：
KASS, M;WITKIN, A;TERZOPOULOS, D
通讯作者：
TERZOPOULOS, D