VIB-UGent Center for Medical Biotechnology, Ghent, Belgium.
Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Ghent, Belgium.
Bioinformatics. 2019 Feb 15;35(4):696-697. doi: 10.1093/bioinformatics/bty634.
In cancer research, cell-based assays are used to assess cell migration and invasion. The major bottleneck is the lack of automated tools to visualize and analyse the large amounts of biological dose-response data produced. To address this challenge, we have developed an automated and free software package for dose-response analyses, DoRes, which is released as an add-on of the freely available and open-source tool CellMissy, dedicated to the management and analysis of cell migration data. DoRes implements non-linear curve fitting functionality into a robust, user-friendly and flexible software package with the possibility of importing a tabular file or starting from a cell migration experiment. We demonstrate the ability of the software by analysing public dose-response data and a typical cell migration experiment, and show that the extracted dose-response parameters and the calculated statistical values are consistently comparable to those of the widely used, commercial software GraphPad Prism.
The software here presented is a new module in CellMissy, an open-source and cross-platform package dedicated to the management, storage and analysis of cell migration data. The new module is written in Java, and inherits the cross-platform support from CellMissy. Source code and binaries are freely available under the Apache2 open-source licence at https://github.com/compomics/cellmissy/.
Supplementary data are available at Bioinformatics online.
在癌症研究中，基于细胞的测定法用于评估细胞迁移和侵袭。主要的瓶颈是缺乏自动工具来可视化和分析产生的大量生物学剂量反应数据。为了解决这个挑战，我们开发了一个用于剂量反应分析的自动化和免费软件包 DoRes，它作为免费提供的开源工具 CellMissy 的附加组件发布，专门用于管理和分析细胞迁移数据。DoRes 将非线性曲线拟合功能集成到一个强大、用户友好且灵活的软件包中，具有导入表格文件或从细胞迁移实验开始的可能性。我们通过分析公共剂量反应数据和一个典型的细胞迁移实验来演示该软件的能力，并表明提取的剂量反应参数和计算的统计值与广泛使用的商业软件 GraphPad Prism 的参数和值一致。
这里介绍的软件是 CellMissy 中的一个新模块，CellMissy 是一个专门用于管理、存储和分析细胞迁移数据的开源和跨平台软件包。新模块是用 Java 编写的，并继承了 CellMissy 的跨平台支持。源代码和二进制文件可根据 Apache2 开源许可证在 https://github.com/compomics/cellmissy/ 上免费获得。
补充数据可在 Bioinformatics 在线获得。
