In our group, we aim to understand metabolism in the nematode Caenorhabditis elegans and its relationships with gene expression, physiology and the response to therapeutic drugs. Visualization of the metabolic pathways that comprise the metabolic network is extremely useful for interpreting a wide variety of experiments. Detailed annotated metabolic pathway maps for C. elegans is mostly limited to pan-organismal maps, many with incomplete or inaccurate pathway and enzyme annotations. Here we present WormPaths, which is composed of two parts: 1) the careful manual annotation of metabolic genes into pathways, categories and levels, and 2) 62 pathway maps that include metabolites, metabolite structures, genes, reactions, and pathway connections between maps. These maps are available on the WormFlux website. We show that WormPaths provides easy-to-navigate maps and that the different levels in WormPaths can be used for metabolic pathway enrichment analysis of transcriptomic data. In the future we envision further developing these maps to be more interactive, with an analogy of road maps that are available on mobile devices.

中文翻译：

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WormPaths：秀丽隐杆线虫代谢途径注释和可视化。


在我们小组中，我们的目标是了解线虫秀丽隐杆线虫的新陈代谢及其与基因表达、生理学和对治疗药物的反应的关系。组成代谢网络的代谢途径的可视化对于解释各种实验非常有用。线虫的详细注释代谢途径图谱大多局限于泛生物体图谱，许多途径和酶注释不完整或不准确。在这里，我们展示了 WormPaths，它由两部分组成：1）将代谢基因仔细手动注释为途径、类别和水平，以及 2）62 个途径图谱，包括代谢物、代谢物结构、基因、反应以及图谱之间的途径连接。这些地图可在 WormFlux 网站上找到。我们表明，WormPaths 提供了易于导航的图谱，并且 WormPaths 中的不同级别可用于转录组数据的代谢途径富集分析。未来，我们设想进一步开发这些地图，使其更具交互性，类似于移动设备上可用的道路地图。