植物Reactome知识库:增强植物途径探索和OMICS数据分析的能力
Parul Gupta1, Justin Elser1, Elizabeth Hooks1
1Department of Botany & Plant Pathology, Oregon State University, Corvallis, OR 97331, USA.
Nucleic acids research
|November 21, 2023
概括
植物Reactome是一个全面的植物通路知识库,为大米提供精选的通路和对129种物种的预测. 该资源可用于分析和可视化工厂路径内的omics数据,促进数据互操作性.
科学领域:
- 植物生物学 植物生物学
- 生物信息学是一种生物信息学.
- 系统生物学 系统生物学
背景情况:
- 植物Reactome是植物通路的免费可访问的知识库.
- 它包括对大米 (Oryza sativa) 的策划路径和对129种其他植物物种的预测.
- 该知识库涵盖了新陈代谢,运输,信号和调节途径.
研究的目的:
- 呈现植物反应体作为植物通路信息的全面资源.
- 突出其作为动态数据发现平台的实用性.
- 强调其对数据互操作性和FAIR数据原则的承诺.
主要方法:
- 处理大米 (Oryza sativa) 的参考路径.
- 为129个植物物种生成基于基因正统学的通路预测.
- 整合omics数据 (基因表达,蛋白质组,代谢组) 用于分析和可视化.
主要成果:
- 植物Reactome目前拥有339个参考路径.
- 它涵盖了广泛的分类学多样性,从单细胞光自营植物到更高的植物.
- 该平台允许用户在植物路径的背景下分析和可视化omics数据.
结论:
- 植物Reactome作为一种有价值的动态资源,用于植物科学研究.
- 它有助于探索植物中复杂的生物过程.
- 该知识库支持数据互操作性,并遵守FAIR数据原则.
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