Justin Clark-Casey is a software developer working with Gos Micklem on SynBioMine (synbiomine.org), a data warehouse for synthetic biology being developed at the University of Cambridge for the Flowers consortium (www.synbiuk.org
As a data warehouse, SynBioMine integrates different types of data (genome, protein, protein domains, pathways, expression, ontology annotations, etc.) from many different sources (NCBI, EBI, BioCyc, etc.) into a single unified data model. You can then search all this data via a single query on any arbitrary term (e.g. gene name, protein name, gene ontology term, etc.) and see the results in a modern web-based user interface. SynBioMine also provides list analysis tools such as gene ontology enrichment, and all data can be accessed programatically.