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


BACKGROUND
DrugViz and data set used in Application are freely available for download at http://202.127.30.184:8080/software.html.
Xiong
Bing
B
State Key Laboratory of Drug Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Pudong, Shanghai, China.
Liu
Ke
K
Wu
Jie
J
Burk
David L
DL
Jiang
Hualiang
H
Shen
Jingkang
J
D003196:Computer Graphics; D003198:Computer Simulation; D016208:Databases, Factual; D030562:Databases, Protein; D015195:Drug Design; D004364:Pharmaceutical Preparations / Q000737:chemistry*; D020543:Proteome / Q000378:metabolism; D012984:Software; D014584:User-Computer Interface
D004364:Pharmaceutical Preparations; D020543:Proteome