<mscottm> http://hackathon3.dbcls.jp/

<kei> scott: concept alliance -- programmers hack rdf

<kei> scott: uniprot

Michael Miller joins BioRDF for 1st time

was with Prosetta Software

now at Terranode

<mscottm> s/Rosetta/Prosetta/

<scribe> New data sources for the HCLS KB

<ericP> 5x5

Suggest post example queries for the HCLS KB

<ericP> the query federation queries are in an SWObjects test suite

<ericP> i suggest the same for HCLS KB

<mscottm> http://linkedlifedata.com/

kei: talk about RDF structures
... RDF structures for experimental context
... gene list - usually not machine friendly
... authors often make electronic version of gene list available in tabular or Excel format
... can we come up with a general RDF structure to represent gene lists?
... other efforts are interested in this such as SharedNames effort

<kei> http://www.tgen.org/research/index.cfm?pageid=502

+

We're looking at Excel document from above link "U133 plus 2.0 AD tangle vs AD control (99% CI)"

kei: this is a typical structure.

eric: this is not normalized. typical?

michael miller: can be normalized

<mscottm> scott: normalization from a database perspective (table structure) vs. normalization of microarray probe values

<ericP> the RDB2RDF WG will need a reallistic database, not a simplified form of it

<ericP> otherwise, they won't be able to meet our needs

<ericP> and they won't be motivated to adopt the use cases we give them

kei: lena has created a draft RDF structure and will post on a wiki page
... discuss app

Purpose: identify aging and neurodegenerative disease biomarkers at the gene and protein levels

<kei> don: input -- location, species,

<kei> don: output -- phenotypes, genes, pathways, proteins ..

<mscottm> tx

<mscottm> gotta run to Terminology

<jun> exit

<jun> exit

ericP are you saving this?

i've forgotten how

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Got date from IRC log name: 08 Feb 2010
Guessing minutes URL: http://www.w3.org/2010/02/08-hcls-minutes.html
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