Cytoscape stringApp exercises

Hands-on exercises using the stringApp for Cytoscape to retrieve molecular networks from the STRING and STITCH databases.

The exercises will teach you how to:

  • retrieve networks for proteins or small-molecule compounds of interest
  • retrieve networks for a disease or an arbitrary topics in PubMed
  • layout and visually style the resulting networks
  • import external data and map them onto a network
  • perform enrichment analyses and visualize the results
  • merge and compare networks
  • select proteins by attributes
  • identify functional modules through network clustering

Licence: Creative Commons Attribution 4.0 International


Additional information

Target audience: Bioinformaticians, Biologists

Authors: Lars Juhl Jensen, Nadezhda T. Doncheva, Helen V. Cook

Contributors: John "Scooter" Morris

Scientific topics: Bioinformatics, Molecular interactions, pathways and networks, Protein interactions, Proteomics, Data visualisation

External resources:

Cytoscape

stringApp

STRING

STITCH

DISEASES