BioNetGen 2.1.5
CellDesigner 4.1beta (including plugin SBMLsqueezer 1.3)
COPASI 4.5.30 with java and python bindings
Cytoscape 2.6.3 (including plugin BiNoM 1)
Edinburgh Pathway Editor 1.3.0
Ekee 2.0.2
ISATools 1.2
JSim 1.6.95
libSBML 3.4.1 (with java, python, matlab bindings)
modelMage 1.0beta
OpenAlea 0.8 (?)
Protege 4.1-alpha-102
RuleBuilder 1.51
SBML2LaTeX 0.9.8
SBML-PET 2.3.5
SBMLeditor 1.3.4
SystemsBiologyWorkbench 2.8.1
SQuad 2
semanticSBML 1.0.11
STSE (from svn)
Taverna Workbench 2.1.2
vanted 1.9
TiDE 1.2.1
Xppaut 6.0