Katherine Mejia asked this question on twitter, well just now I want to keep it short,
- Both BioPAX (Level 3) and SBML (Level 2) can encode signaling pathways, metabolic pathways and regulatory pathways, although SBML can represent finer details.
- If your aim is simulation and prediction then SBML seems to be reasonable choice.
- SBML has better software and API support than BioPAX, no doubt this one is major advantage with SBML.
- Similarly BioPAX is rich standard when it comes to encode the interactions such as genetics, molecular or non-molecular.
Visual comparison of SBML, BioPAX, CellML and PSI
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