ScyNet：可视化群落代谢模型中的相互作用。
ScyNet: Visualizing interactions in community metabolic models.
作者信息
Predl Michael, Gandolf Kilian, Hofer Michael, Rattei Thomas
机构信息
Centre for Microbiology and Environmental Systems Science, University of Vienna, Vienna 1030, Austria.
Doctoral School in Microbiology and Environmental Science, University of Vienna, Vienna 1030, Austria.
出版信息
Bioinform Adv. 2024 Jul 17;4(1):vbae104. doi: 10.1093/bioadv/vbae104. eCollection 2024.
MOTIVATION
Genome-scale community metabolic models are used to gain mechanistic insights into interactions between community members. However, existing tools for visualizing metabolic models only cater to the needs of single organism models.
RESULTS
ScyNet is a Cytoscape app for visualizing community metabolic models, generating networks with reduced complexity by focusing on interactions between community members. ScyNet can incorporate the state of a metabolic model via fluxes or flux ranges, which is shown in a previously published simplified cystic fibrosis airway community model.
AVAILABILITY AND IMPLEMENTATION
ScyNet is freely available under an MIT licence and can be retrieved via the Cytoscape App Store (apps.cytoscape.org/apps/scynet). The source code is available at Github (github.com/univieCUBE/ScyNet).
动机
基因组规模的群落代谢模型用于深入了解群落成员之间相互作用的机制。然而，现有的代谢模型可视化工具仅满足单一生物体模型的需求。
结果
ScyNet是一款用于可视化群落代谢模型的Cytoscape应用程序，通过关注群落成员之间的相互作用生成复杂度降低的网络。ScyNet可以通过通量或通量范围纳入代谢模型的状态，这在先前发表的简化囊性纤维化气道群落模型中得到了展示。
可用性和实现方式
ScyNet根据麻省理工学院许可免费提供，可通过Cytoscape应用商店（apps.cytoscape.org/apps/scynet）获取。源代码可在Github（github.com/univieCUBE/ScyNet）上获取。
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