This morning I finished setting up a RDF interface to the NMRShiftDB data (see nmr:234):

I blogged earlier about our efforts to create a better SOAP service architecture, based on XMPP:

While Bioclipse is much more, it could be an interesting alternative to the Jmol application.

Games are known to trigger technical innovation. But recently it also triggered innovation on open chemical databases.

Ian Davis was recently quoted saying open data is more important than open source, which was pulled (out of context) from this presentation. The context was (a slide earlier): Data outlasts code.

Those who carefully analyzed the second SPARQL query in Solubility Data in Bioclipse #3: Finding ChEBI IDs will have noticed the use of owl:sameAs.

With the RDF functionality set up in Bioclipse (see Solubility Data in Bioclipse #2: handling RDF ), we can start mining the Chemical RDF space.

C-SHALS 2009 (Conference on Semantics in Healthcare and Life Sciences) has just started, and has coverage in a blog and in a FriendFeed room.

RDF is swiftly becoming the lingua franca of life sciences (see for example [1,2]). Bioclipse is an excellent platform to visualize results from analysis of the network, both for graph visualization (see [3 ]), as well of visualization of domain specific data types (e.g. sequences, molecules, …).

This week I have been porting the PubChem plugin for Bioclipse 1.2 to the new manager-based architecture.

As of tonight, rdf.openmolecules.net links to the chemistry DBPedia (1816 chemical compounds), for which I used the SPARQL given in DBPedia: lookup and autocomplete of chemistry . It’s first of several steps to extend rdf.openmolecules.net to link up various chemistry database.