Program in Molecular Structure and Function, Hospital for Sick Children, 21-9830 PGCRL, 686 Bay Street, Toronto, ON, M5G 0A4, Canada.
Program in Molecular Structure and Function, Hospital for Sick Children, 21-9830 PGCRL, 686 Bay Street, Toronto, ON, M5G 0A4, Canada, Department of Biochemistry and.
Bioinformatics. 2015 Oct 15;31(20):3390-1. doi: 10.1093/bioinformatics/btv385. Epub 2015 Jun 24.
Network biology has emerged as a powerful tool to uncover the organizational properties of living systems through the application of graph theoretic approaches. However, due to limitations in underlying data models and visualization software, knowledge relating to large molecular assemblies and biologically active fragments is poorly represented.
Here, we demonstrate a novel hypergraph implementation that better captures hierarchical structures, using components of elastic fibers and chromatin modification as models. These reveal unprecedented views of the biology of these systems, demonstrating the unique capacity of hypergraphs to resolve overlaps and uncover new insights into the subfunctionalization of variant complexes.
Hyperscape is available as a web application at http://www.compsysbio.org/hyperscape. Source code, examples and a tutorial are freely available under a GNU license.
john.parkinson@utoronto.ca or graham.cromar@gmail.com
Supplementary data are available at Bioinformatics online.
通过应用图论方法，网络生物学已经成为一种强大的工具，可以揭示生命系统的组织特性。然而，由于底层数据模型和可视化软件的限制，与大型分子组装体和生物活性片段相关的知识表示得很差。
在这里，我们展示了一种新的超图实现，使用弹性纤维和染色质修饰的组件作为模型，更好地捕捉了层次结构。这些揭示了这些系统生物学的前所未有的观点，展示了超图解决重叠和揭示变体复合物亚功能化新见解的独特能力。
Hyperscape 可作为网络应用程序在 http://www.compsysbio.org/hyperscape 上使用。根据 GNU 许可证，源代码、示例和教程可免费获得。
john.parkinson@utoronto.ca 或 graham.cromar@gmail.com
补充数据可在《生物信息学》在线获得。
