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Release 2.01, December 2008

System Requirements

The plugin works with Cytoscape 2.5 and 2.6, which requires Java SE 5 or Java SE 6.

Dataset Versions

Release 2.01 is based on UniProt version 14.1, Ensembl 49 and Pfam version 23.

Domain-Domain-Interaction Datasets:

Structural datasets:
  • iPfam version 21
  • 3did version of November 2007
Predicted datasets:
  • InterDom version 2.0
  • LLZ
  • DPEA
  • DIMA version 2.0, consisting of 3 subsets (domain profiling, DPEA, and string)
  • LDSC consisting of 2 sets: all interactions and a core subset
  • RDFF
  • RCDP50
  • APMM consisting of 2 sets: APMM1 and APMM2
  • LP
  • PINS
  • IPPRI (Schelhorn, S.E., Lengauer, T., Albrecht, M. (2008) An integrative approach for predicting interactions of protein regions. Bioinformatics, in press.)

miRNA annotation sources:

DomainGraph database versions:


Download DomainGraph Release 2.01.


Dorothea Emig1, Nathan Salomonis2, Melissa S. Cline3, Jan Baumbach4, Thomas Lengauer1, Mario Albrecht1, Anne Kunert5, Karsten Klein5, Petra Mutzel5

1 Department of Computational Biology & Applied Algorithmics, Max Planck Institute for Informatics, Saarbrücken, Germany
2 The J. David Gladstone Institutes, San Francisco, CA, USA
3 Department of Molecular Cell and Developmental Biology, University of California, Santa Cruz, CA, USA
4 International Computer Science Institute, Berkeley, CA, USA
5 Dortmund University of Technology, Dortmund, Germany