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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:


Hühne H, Kessler V, Fürstberger A, Kühlwein S, Platzer M, Sühnel J, Lausser L, Kestler HA. 3D Network exploration and visualisation for lifespan dataBMC Bioinformatics 19(1): 390, 2018. https://doi.org/10.1186/s12859-018-2393-x

Latest News

 

Our paper "Constraining classifiers in molecular analysis: invariance and robustness" has been published in Journal of the Royal Society Interface.

 

Our paper "Measuring Mental Effort for Creating Mobile Data Collection Applications" has been published in International Journal of Environmental Research and Public Health.