School of Computer Science and Engineering, University of New South Wales, NSW, Australia.
Proteomics. 2009 Dec;9(23):5309-15. doi: 10.1002/pmic.200900260.
Here, we describe the Interactorium, a tool in which a Virtual Cell is used as the context for the seamless visualisation of the yeast protein interaction network, protein complexes and protein 3-D structures. The tool has been designed to display very complex networks of up to 40 000 proteins or 6000 multiprotein complexes and has a series of toolboxes and menus to allow real-time data manipulation and control the manner in which data are displayed. It incorporates new algorithms that reduce the complexity of the visualisation by the generation of putative new complexes from existing data and by the reduction of edges through the use of protein "twins" when they occur in multiple locations. Since the Interactorium permits multi-level viewing of the molecular biology of the cell, it is a considerable advance over existing approaches. We illustrate its use for Saccharomyces cerevisiae but note that it will also be useful for the analysis of data from simpler prokaryotes and higher eukaryotes, including humans. The Interactorium is available for download at http://www.interactorium.net.
在这里，我们描述了 Interactorium，这是一种工具，其中虚拟细胞被用作酵母蛋白质相互作用网络、蛋白质复合物和蛋白质 3-D 结构的无缝可视化的上下文。该工具旨在显示多达 40000 种蛋白质或 6000 个多蛋白复合物的非常复杂的网络，并且具有一系列工具箱和菜单，可实时进行数据操作并控制数据的显示方式。它结合了新的算法，通过从现有数据中生成假定的新复合物以及通过在多个位置发生时使用蛋白质“双胞胎”来减少边缘，从而降低可视化的复杂性。由于 Interactorium 允许对细胞的分子生物学进行多层次观察，因此它是现有方法的重大进步。我们举例说明了它在酿酒酵母中的用途，但请注意，它也将有助于分析来自更简单的原核生物和高等真核生物（包括人类）的数据。Interactorium 可在 http://www.interactorium.net 下载。
