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

Zhang Zhaotian et al., Surgical outcomes of 23-gauge transconjunctival pars plana vitrectomy combined with lensectomy for glaucomatous eyes with extremely shallow anterior chamber and cataract Glaucoma. BMC Ophthalmology (2016) doi:10.1186/s12886-015-0179-8

Ursea Roxana et al., The role of conjunctival biopsy in the diagnosis of granulomatosis with polyangiitis. Journal of Ophthalmic Inflammation and Infection (2015) doi:10.1186/s12348-014-0033-9

Williams Dominic et al., Fast segmentation of anterior segment optical coherence tomography images using graph cut. Eye and Vision (2015) doi:10.1186/s40662-015-0011-9

Zhu Yongnan et al., PathRings: a web-based tool for exploration of ortholog and expression data in biological pathways Networks analysis. BMC Bioinformatics (2015) doi:10.1186/s12859-015-0585-1

Nalluri J Joseph et al., DISMIRA: Prioritization of disease candidates in miRNA-disease associations based on maximum weighted matching inference model and motif-based analysis Proceedings of the 10th International Conference of the Brazilian Association for Bioinformatics and Computational Biology (X-Meeting 2014) X-meeting 2014 - International Conference on the Brazilian Association for Bioinformatics and Computational Biology. BMC Genomics (2015) doi:10.1186/1471-2164-16-S5-S12