NAViGaTOR-Network Analysis, Visualization, & Graphing TORonto

NAViGaTOR is a software package for visualizing and analyzing protein-protein interaction networks. NAViGaTOR can query OPHID / I2D - online databases of interaction data - and display networks in 2D or 3D. To improve scalability and performance, NAViGaTOR combines Java with OpenGL to provide a 2D/3D visualization system on multiple hardware platforms. NAViGaTOR also provides analytical capabilities and supports standard import and export formats such as GO and the Proteomics Standards Initiative (PSI).

In protein-protein interaction networks, nodes represent proteins, and edges between nodes represent physical interactions between the proteins.These visualizations can enable insights into the proteins that play key roles in diseases such as cancer.
Go to NAViGaTOR home page

I2D-Interologous Interaction Database

I2D is an on-line database of known and predicted mammalian and eukaryotic protein-protein interactions. It has been built by mapping high-throughput (HTP) data between species. Thus, until experimentally verified, these interactions should be considered "predictions". I2D remains one of the most comprehensive sources of known and predicted eukaryotic PPI.
Go to I2D home page

CDIP - Cancer Data Integration Portal

CDIP is an on-line database of significantly deregulated genes in lung, ovarian, prostate and head&neck cancers. Work on pancreas cancer and sarcoma is ongoing.
Go to CDIP home page

NetwoRx - A database for linking drugs to pathways and networks

NetwoRx stores pre-computed drug lists for KEGG pathways, GO categories, YEASTRACT transcription factor targets, and orthologs of human KEGG DISEASE groups. Users can interactively explore or download pathway-drug, pathwaypathway, and drug-drug networks, or submit a new gene set to NetwoRx and retrieve the drugs that target it.
Go to NetwoRx home page

SCRIPDB - A Portal for Easy Access to Syntheses,Chemicals, and Reactions In Patents

SCRIPDB provides the full original patent text, reactions, and relationships described within any individual patent, in addition to the molecular files
common to structural databases. We discuss how such information is valuable in medical text mining, chemical image analysis, reaction extraction,
and in silico pharmaceutical lead optimization. SCRIPDB may be searched by exact chemical structure, substructure, or molecular similarity
and the results may be restricted to patents describing synthetic routes.
Go to SCRIPDB home page

GeneCards mirror

GeneCards mirror provides a comprehensive annotation of individual genes.
Go to GeneCards mirror page

BTSVQ-Binary tree structured vector quantization

BTSVQ is a computational tool to analyze and visualize microarray gene expression data. This technique merges the results of SOM (genes space), and partitive k-means (specimen space). The algorithm uses vector quantization and self-organizing capabilities of SOMs in finding significant gene centers in gene space (high dimensionality and large number of clusters), and the effectiveness of k-means in experiment space (medium dimensionality and low number of clusters).
Go to BTSVQ home page