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

@article{XiongLWBJS08, abstract = {Summary: 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. Availability: DrugViz and data set used in Application are freely available for download at http://202.127.30.184:8080/software.html Contact: jkshen@mail.shcnc.ac.cn 10.1093/bioinformatics/btn389}, author = {Xiong, Bing and Liu, Ke and Wu, Jie and Burk, David L. and Jiang, Hualiang and Shen, Jingkang}, citeulike-article-id = {3197944}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/bioinformatics/btn389}, citeulike-linkout-1 = {http://bioinformatics.oxfordjournals.org/cgi/content/abstract/24/18/2117}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/18658180}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=18658180}, day = {15}, doi = {10.1093/bioinformatics/btn389}, journal = {Bioinformatics}, keywords = {biological, cytoscape, drug, networks, plugin}, month = {September}, number = {18}, pages = {2117--2118}, posted-at = {2008-09-08 14:26:45}, priority = {2}, title = {DrugViz: a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks}, url = {http://dx.doi.org/10.1093/bioinformatics/btn389}, volume = {24}, year = {2008} }

TY - JOUR ID - XiongLWBJS08 L3 - citeulike-article-id:3197944 N2 - Summary: 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. Availability: DrugViz and data set used in Application are freely available for download at http://202.127.30.184:8080/software.html Contact: jkshen@mail.shcnc.ac.cn 10.1093/bioinformatics/btn389 IS - 18 JF - Bioinformatics EP - 2118 TI - DrugViz: a Cytoscape plugin for visualizing and analyzing small molecule drugs in biological networks VL - 24 SP - 2117 KW - biological KW - cytoscape KW - drug KW - networks KW - plugin AU - Xiong, Bing AU - Liu, Ke AU - Wu, Jie AU - Burk, David AU - Jiang, Hualiang AU - Shen, Jingkang PY - 2008/09/15/ UR - http://dx.doi.org/10.1093/bioinformatics/btn389 ER -