BIND - The Biomolecular Interaction Network Database

The Biomolecular Interaction Network Database (BIND; http://binddb.org) is a database designed to store full descriptions of interactions, molecular c omplexes and pathways. Development of the BIND 2.0 data model has led to th e incorporation of virtually all components of molecular mechanisms includi ng interactions between any two molecules composed of proteins, nucleic aci ds and small molecules. Chemical reactions, photochemical activation and co nformational changes can also be described, Everything from small molecule biochemistry to signal transduction is abstracted in such a way that graph theory methods may be applied for data mining. The database can be used to study networks of interactions, to map pathways across taxonomic branches a nd to generate information for kinetic simulations. BIND anticipates the co ming large influx of interaction information from high-throughput proteomic s efforts including detailed information about post-translational modificat ions from mass spectrometry. Version 2.0 of the BIND data model is discusse d as well as implementation, content and the open nature of the BIND projec t. The BIND data specification is available as ASN.1 and XML DTD.