DrugViz: a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks | Zendy

Bing Xiong | Zendy; Ke Liu | Zendy; Jie Wu | Zendy; David L. Burk | Zendy; Hualiang Jiang | Zendy; Jingkang Shen | Zendy

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DrugViz: a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks

Author(s) -

Bing Xiong,

Ke Liu,

Jie Wu,

David L. Burk,

Hualiang Jiang,

Jingkang Shen

Publication year - 2008

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btn389

Subject(s) - plug in , computer science , visualization , software , set (abstract data type) , cluster analysis , data mining , hierarchical clustering , computational biology , interactome , biological network , bioinformatics , information retrieval , biology , machine learning , programming language , biochemistry , gene

DrugViz is a Cytoscape plugin that is designed to visualize and analyze small molecules within the framework of the interactome. DrugViz can import drug-target network information in an extended SIF file format to Cytoscape and display the two-dimensional (2D) structures of small molecule nodes in a unified visualization environment. It also can identify small molecule nodes by means of three different 2D structure searching methods, namely isomorphism, substructure and fingerprint-based similarity searches. After selections, users can furthermore conduct a two-side clustering analysis on drugs and targets, which allows for a detailed analysis of the active compounds in the network, and elucidate relationships between these drugs and targets. DrugViz represents a new tool for the analysis of data from chemogenomics, metabolomics and systems biology.

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