Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard
visual languages that help accelerate work by promoting regularity, removing ambiguity …

Biological Pathway Exchange (BioPAX) is a standard language to represent biological
pathways at the molecular and cellular level and to facilitate the exchange of pathway data. The …

Genomic data allow the large-scale manual or semi-automated assembly of metabolic
network reconstructions, which provide highly curated organism-specific knowledge bases. …

Motivation: Molecular biotechnology now makes it possible to build elaborate systems
models, but the systems biology community needs information standards if models are to be …

Multiple models of human metabolism have been reconstructed, but each represents only a
subset of our knowledge. Here we describe Recon 2, a community-driven, consensus '…

Constraint-based reconstruction and analysis (COBRA) provides a molecular mechanistic
framework for integrative analysis of experimental molecular systems biology data and …

BioModels Database ( http://www.ebi.ac.uk/biomodels/ ), part of the international initiative
BioModels.net, provides access to published, peer-reviewed, quantitative models of …

Background Quantitative models of biochemical and cellular systems are used to answer a
variety of questions in the biological sciences. The number of published quantitative models …

… Michael Hucka … Koji M. Kyoda …

Most of the published quantitative models in biology are lost for the community because
they are either not made available or they are insufficiently characterized to allow them to be …