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Welcome to NAViGaTOR

NAViGaTOR - Network Analysis, Visualization, & Graphing TORonto is a software package for visualizing and analyzing protein-protein interaction networks.

NAViGaTOR is under active development by members of Jurisica Lab of the Ontario Cancer Institute

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Download NAViGaTOR

Current Version: NAViGaTOR 2.3.0

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Browse documentation

The User manual is a concise guide explaining the features as well as giving step-by-step instructions on using NAViGaTOR

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Getting help

Have questions? Please check out the FAQ for answers to common concerns. If you do not find the solution, please feel free to email us.

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Visualize your graph using versatile graphics, powered with OpenGL accelerated libraries.

Load and visualize thousands of relationships and interactions with powerful multi-threaded algorithms.

View networks in 2D and 3D. Position nodes using a mixture of automatic force-directed layout.

Use 3D views with various node shapes and edge styles to convey important information from large complex networks.

Use analysis tools like Shortest Paths with built-in spreadsheets to highlight areas of interest.

Use the innovative Hotbox pop-up tool to quickly perform the most common network operations.

Subsets can be used to models complexes/hubs and collapsed into single nodes for a higher level abstraction of the data

Screen-capture showing nodes on a circular layout, with hub nodes automatically scaled according to their degree (connectivity).

The scalability of NAViGaTOR is demonstrated by rendering an extremely large network (1.7 million edges; see ‘MouseNet’, Table 3.1) in under 20 minutes. Automated filters were used to color nodes by degree.

Circular and linear layouts are shown for a model network, along with both curved and bent edges. We are currently experimenting with curved edges to identify an optimal interface for users to manipulate complex curves in the networks.

A combination of layouts and edge styles is used to illustrate the presence of highly connected hubs in a 3-dimensional rendering of this model network.

Savas, S., Geraci, J., Jurisica, I., Liu, G. A comprehensive catalogue of functional genetic variations in the EGFR pathway: Protein-protein interaction analysis reveals novel genes and polymorphisms important for cancer research. Int J Cancer,125(6): 1257-65, 2009.

Savas, S., Geraci, J., Jurisica, I., Liu, G. A comprehensive catalogue of functional genetic variations in the EGFR pathway: Protein-protein interaction analysis reveals novel genes and polymorphisms important for cancer research. Int J Cancer,125(6): 1257-65, 2009.

Showing data from Cell paper, Fig 5 Global Sequencing of Proteolytic Cleavage Sites in Apoptosis by Specific Labeling of Protein N Termini

Cox, B., Kotlyar, M., Evangelou, A., Ignatchenko, V., Ignatchenko, A., Whiteley, K., Jurisica, I., Adamson, L., Rossant, J., Kislinger, T., Comparative systems biology of human and mouse as a tool for modeling human placental pathology, Mol Sys Bio, 5, 279, 2009.

Agarwal R., Jurisica, I., Cheng K.W., Mills G.B. The emerging role of the Rab25 small GTPase in cancer, Traffic, 2009. E-Pub July 23, 2009. In Press.

Tutorials

Tutorial1

play

  • Demonstrates how to move nodes/edges around
  • Explains how the dynamic Force Directed layout algorithm works
  • Demonstrates how to grow selections till entire components are selected
  • Gives some tips for laying out crowded networks

Tutorial2

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  • Demonstrates 3D support
  • Explains how the dynamic Force Directed layout algorithm works

Tutorial3

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  • Demonstrates how to do Concentric Circles layouts
  • Explains how Concentric Circle layout works
  • Gives tip for hiding non-interesting nodes by scaling them out