nodalpoint.org

Just a quick note to let everyone know that the University in Taiwan where nodalpoint is hosted has been having various network problems, which is why the site has been unavailable for the past 24 hrs. I don't know what the specific problem was or if the fix is permanent.

Yeast hub

This is the talk I was genuinely interested in seeing, it is supposedly all about semantic web...

- Time is right for using the semantic web...

So the introduction is fairly general, the web is full of heterogeneous data and access methods, we need metadata and we need a standard format to put our metadata in which in this case is RDF.

The speaker is now talking about the proliferation of all the different BioXML standards, for example MAGE-ML, SBML, etc. The problem in pathway databases is particularly bad with many formats describing the same thing. So according to the speaker we should unify on RDF/XML. Then we get all the so-called "stuff for free" e.g. inference, integration etc.

So now I'm way at the back of the main conference all because my laptop battery is not what it used to be...

- Annotations are made by different annotation groups
- How do you maintain consistency
- GO aims to maintain consistency
- Standards, best practice, training

- After the annotations how do we check the consistency ?

- Compare annotations (curated orthologs) across species ?

- Measure of annotation consistency: e.g. Mouse, human and rat annotation of PAX8, how do they compare ?

- Collect data, cluster annotations and make comparison
- Use curated ortholog sets from MGI about 15000

I'm sitting in on the ontologies and database track at ISMB today, the wireless isn't working in the main conference room, I'm a little fuzzy from drinking German beer last night, but thankfully I didn't find myself wearing my lanyard to the bar or taking my laptop to dinner. Not that I can say the same for others...

Data integration introduction

- How do we control people ?
- How do we maintain consistency ?
- Theme of data integration has been around for a while (early 90s)
- Talking about RDF and data integration
- Raving on basically...

The presenter is Finnish, his accent is a little funny, kind of like listening to the chef from the muppets give a scientific talk, he's cool though...