• GENESIS simulator
• NEURON simulator
• NeuroConstruct
• NEST (Neural Simulation Technology)
• NEOSIM (implements network level NeuroML)
• neurospaces
• FACETS Project
• PyNN
• CARMEN Project
• Catacomb
• Braininfo and NeuroNames
• NSL Neural Network Simulation Language
• Abstracted Protein Simulator (uses NeuroML)

• SBML (Systems Biology Markup Language)
• CellML
• BrainML: Includes standards for electrophysiology data
• NeuroSys: Database system with Napster influences
• Axiope Project
• MGED/MAGE/MIAME: XML standards for the microarray community
• CoCoMac: Connectivity database for Macaque monkey cortex
• Cortical Neuron Net Database
• NeuroScholar
• Virtual Ratbrain: MorphML-based tools for neural reconstructions

• Castor
• JAXB.
• Protege: Tools for defining ontologies
• XML.com Bioinformatics Portal
• SCHUCS: Relates UML specifications to XML schema for defining SBML object models

Email Sharon Crook (sharon.crook at asu.edu) to add or correct links on this page.