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

Chen Hsiao-Rong et al., A network based approach to drug repositioning identifies plausible candidates for breast cancer and prostate cancer Functional and structural genomics. BMC Medical Genomics (2016) doi:10.1186/s12920-016-0212-7

Chen Xun et al., Comparison of early changes in and factors affecting vault following posterior chamber phakic Implantable Collamer Lens implantation without and with a central hole (ICL V4 and ICL V4c) Cataract and refractive surgery. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0336-8

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

Huang Chunmei et al., Changes in axial length, central cornea thickness, and anterior chamber depth after rhegmatogenous retinal detachment repair Retina. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0296-z

Qiu Wen-Ya et al., New histopathologic and ultrastructural findings in Reis-Bücklers corneal dystrophy caused by the Arg124Leu mutation of TGFBI gene Cornea and external eye diseases. BMC Ophthalmology (2016) doi:10.1186/s12886-016-0325-y