Learn to use the VisANT resource, a multi-mode software platform used for visualization and analysis of interaction pathways. The VisANT application provides researchers with an easy to use graphical interface for integrating biomolecular interaction data. The metagraph structure allows multi-scale visualization of bio-networks and its integrative data-mining feature permits a large number of functional associations for 103 different species.

You will learn:

  • how to search for interactions between genes/proteins
  • how to find and explore integrated KEGG pathway data
  • methods to effectively navigate the interaction network metagraph
  • how to integrate protein expression, orthology, sequence annotation and functional annotation data into the interaction network


This tutorial is a part of the tutorial group Interaction resources. You might find the other tutorials in the group interesting:

Pathway Interaction Database: A resource of pathway and network data and displays

MINT: Molecular Interaction Database

Cytoscape: An open-source software platform used for visualization and analysis of molecular interaction and network data

BiologicalNetworks: Analyze and visualize molecular interaction networks

BioSystems: Database of Biological Systems

Reactome Legacy: Older version of the current Reactome knowledgebase of biological processes.

Reactome: Knowledgebase of biological processes

GeneMANIA: GeneMANIA: Fast Gene Function Predictions

GenMAPP: A freely available open source software application for visualizing microarray data in the context of biological pathways.

InterPro: A comprehensive protein signature resource

IntAct protein interaction database: IntAct is an open source database and analysis resource for protein interaction data

KEGG: KEGG, The Kyoto Encyclopedia of Genes and Genomes


Pathways and Interactions : Tools that are involved with protein interactions and pathway features. Some tools are primarily repositories and some offer analysis options.


Video Tip of the Week: Integrative Multi-species Prediction (IMP) Network Analysis Resource: A while back Mary saw the following tweet go by & collected it as a possible topic for one of our weekly tips: RT @moorejh: #bioinformatics #genomics RT @GreeneScientist Interactive and video tutorials...

Open source molecular modeling--finally?: My Bio SmartBrief newsletter today had a reference to a paper in a rather...um...obscure journal. Maybe it is just something I have missed over the years, but the Journal of the Royal Society Interface...


Recent BioMed Central research articles citing this resource

Kim Cheong Young et al., Anterior segment configuration as a predictive factor for refractive outcome after cataract surgery in patients with glaucoma Cataract and refractive surgery. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0359-1

Jinawath Natini et al., Bridging the gap between clinicians and systems biologists: from network biology to translational biomedical research. Journal of Translational Medicine (2016) doi:10.1186/s12967-016-1078-3

Kim Suk Eung et al., Postoperative occlusion of visual axis with fibrous membrane in the presence of anterior capsular phimosis in a patient with pseudoexfoliation syndrome: a case report Cataract and refractive surgery. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0394-y

Paley Suzanne et al., Pathway collages: personalized multi-pathway diagrams. BMC Bioinformatics (2016) doi:10.1186/s12859-016-1382-1

Lee Sang-Mok et al., Estimation of axial curvature of anterior sclera: correlation between axial length and anterior scleral curvature as affected by angle kappa Cornea and external eye diseases. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0355-5