可折叠树:一个交互式的网络应用程序来呈现可折叠的层次结构
Yuan Gao1,2, Rob Patro2, Peng Jiang1
1Cancer Data Science Lab, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, United States.
Bioinformatics (Oxford, England)
|October 26, 2024
概括
本研究介绍了Collapsible Tree,这是一个JavaScript框架和Web应用程序,用于可视化层次数据,例如单细胞转录学. 它整合了细胞系和基因表达,以更清晰地探索生物模式.
科学领域:
- 生物信息学是一种生物信息学.
- 数据可视化 数据可视化
- 计算生物学 计算生物学
背景情况:
- 有效的数据可视化是解释复杂生物数据集的关键,特别是在单细胞转录学中发现的等级结构.
- 现有的方法,如t-分布式静态邻居嵌入 (t-SNE) 和统一多重近似和投影 (UMAP),通常需要对细胞类型和基因表达进行单独的可视化,这可能会掩盖层次关系.
研究的目的:
- 开发一个集成的可视化工具,将层次的谱系结构与相关的数据值结合起来.
- 能够在细胞发育和血统关系的背景下直观地探索基因表达模式.
主要方法:
- 开发一个JavaScript框架,用于创建交互式,可扩展和可折叠的树结构.
- 实施一个Web应用程序,可折叠树,以展示框架的功能.
主要成果:
- 可折叠树框架成功地将血统结构和基因表达数据集成到一个单一的层次图中.
- 这种综合可视化可方便在不同的细胞系和子系中比较基因表达.
- 该工具揭示了复杂的价值模式,这些可能会被传统方法 (如UMAP和t-SNE) 错过.
结论:
- 可折叠树为可视化和探索复杂的生物数据提供了一种强大的新方法,特别是从单细胞转录组学.
- 该框架提高了分层生物结构和相关的定量数据的解释性.
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