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TreeJ:一个ImageJ插件,用于从静态图像进行交互式细胞谱系重建.
Elise Laruelle1,2,3, Jean-Christophe Palauqui4, Philippe Andrey4
1Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), Route de Saint Cyr, 78000, Versailles, France. elise.laruelle@gmail.com.
Plant methods
|November 17, 2023
概括
本研究介绍了TreeJ,这是一个ImageJ/斐济插件,用于从静态3D图像中重建植物细胞系. 它可以生成谱系树,细胞标记和数据出口以进行高级分析.
科学领域:
- 发育生物学是发展生物学.
- 植物生物学 植物生物学
- 生物图像分析分析
背景情况:
- 重建细胞系在发育生物学中至关重要,通常使用时间间隔数据.
- 静态图像,通常需要用于组织固定或改善染色,缺乏血统信息.
- 植物细胞壁保留了分裂历史,需要用于静态图像谱系重建的工具.
研究的目的:
- 开发一种工具,用于从3D标记图像生成和编辑细胞谱系树.
- 为了使发育生物学研究能够进行标准化的图像注释.
- 为了方便在静态生物样本中分析细胞分裂史.
主要方法:
- 开发了一个用户友好的界面,用于构建和编辑血统树.
- 在血统树结构中实现了细胞标记功能.
- 启用了带有特定标签的子树或细胞的提取.
主要成果:
- 该TreeJ插件允许用户从3D图像创建和修改血统树.
- 细胞可以被标记,并且可以根据这些标签提取特定的细胞组.
- 生成的谱系树可以导出,以便与其他可视化和分析软件兼容.
结论:
- TreeJ提供了一种解决方案,用于从植物生物学中的静态3D图像中重建血统.
- 该插件促进了谱系树的图形和细胞模式水平分析.
- 开源代码可供进一步开发和应用.
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