Medical Systems Biology

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JANet

JANet (Javascript AgeFactDB Network-viewer) is a specialized 3D Network Exploration and Visualization for Lifespan Data Exploration from AgeFactDB.

 JANet 3D viewer interface screenshot

Features

  • Interactive 3D network visualization (rotate, zoom, etc.)
    • 2D representation
    • Stereo representation (side by side)
    • 3D beamer mode (condensed side by side stereo, converted for shutter glasses)
      JANet 3D beamer mode example
  • Ageing-related network data (AgeFactDB)
    • Lifespan observations
    • Ageing factors
    • Augmentation nodes (e.g.: allele types, citations)
  • Augmentation with external domain knowledge
    • Gene Ontology (GO)
    • KEGG Pathways
  • Genes of interest analysis (e.g.: differentially expressed genes)
  • Scripting language
    • JANet-specific API

Installation

The viewer can be started directly from the server at
https://sysbio.uni-ulm.de/software/janet

or the source code can be downloaded for local installation
(https://sysbio.uni-ulm.de/software/janet/latest.zip).

For a local installation there are two options:

  1. Extract the archive somewhere in the file system.
  2. Install a web server locally and extract the archive somewhere below the server root directory.
  3. Install a neo4j server
  4. python 3.5 or above is required.

Citing JANet

To cite the network viewer in publications, use:


[submitted, available soon]

Latest News

Our paper "3D Network exploration and visualisation for lifespan data" has been accepted in BMC Bioinformatics.

Our paper "Long-lived rodents reveal signatures of positive selection in genes associated with lifespan" has been published in Plos Genetics.