. Author manuscript; available in PMC: 2017 May 31.

Published in final edited form as: IEEE Trans Biomed Eng. 2016 Jun 10;63(10):2007–2014. doi: 10.1109/TBME.2016.2560762

Table II.

New standards and software needed to accelerate WC modeling.

Type	Description
Database	Expanded molecular biological databases such as ChEBI [39]
Software	Data curation tools for aggregating the data to build models
Software	Pathway/genome database to organize model training data
Standard	Sequence- and rule-based multi-algorithmic modeling language
Software	Model design tools that generate models from pathway/genome databases
Software	Distributed parameter estimation tools
Software	Frameworks for systematically verifying model
Software	High-performance, parallel, rule-based multi-algorithm simulator
Standard	Extended SBGN standard for hybrid maps containing Process Description, Entity Relationship, and Activity Flow nodes
Software	Visualization software that supports contextual zooming