= BBMRI =

== Feedback group: ==
 * BBMRI steering committee
 * Collaboration with Marco Roos (semweb interface + data on biobankers)

== Tasks 1: Add !LifeLines metadata (features/protocols) ==
==== Primary goal: get !LifeLines features included in BBMRI biobank as example for other biobanks. ====
 * get BBMRI catalog running - despoina (done)
 * import the Excel - despoina (done)
 * biobank is a kind of panel - despoina (done)
 * Get from Joris is a Excel export of LifeLines biobank metadata - joris (features, protocols)
 * update online version, and send email around to steering committe - morris

== Task 2: Add biobank information from BBMR-EU ==
==== Primary goal: get european data into the catalog and expand model when needed ====
 * contact the BBMRI-EU catalog (http://gbic.target.rug.nl/trac/molgenis/wiki/BBMRI) - morris
 * get data as csv or something similar - morris
 * reformat csv to match features, protocols, biobanks, contacts, and update model if something is missing - despoina

== Task 3: Add semantic search ==
==== Primary goal: to have the semantic search available for BBMRI catalog ====
 * 

== Task 4: Add and improve sparql interface
==== Primary goal: make catalogue queriable by sparql ====
 * Add and check the sparql interface - despoina
 * Put it in the online version - despoina
 * Ask Marco Roos to verify the endpoint and give feedback on it - marco
 * Write short wiki page on how to use [http://www.gen2phen.org/post/molgenis-and-d2r Pedro Lopes feedback] - despoina 



 ==
== Theme 2: start with 'semantic molgenis' ==
==== First goal: link MOLGENIS to external ontology ====
 * first enhance N3 file with external mapping:

 * then test if we use that ontology in SPARQL query

 * if works: then update the MOLGENIS model + generator

==== Next step: investigate ontologies that should be linked ====
 * how about biobankers list of Marco Roos?

 * disease ontology?

 * material ontology?

=== Actions ===
 * Connect to Pedro to investigate his 'semantic molgenis' work?

 * Connect to BBMRI-EU to request more data?

== (Notes) ==
 * look into data
 * cross links —> protein underlying peaks ?
 * biobanks : phenotypic information e.g lifelines project data : annotate question : ARE there other data set in the world? —> merge into lifelines data …
 * next step : come up with an "algorithm" that does the mapping . Let's assume we have 2 studies , we would like to merge and export the results  .
 * it's not really an algorithm , but more of a "correspondence " rule …If we have 2 questions - "Are they compatible "? or if not what kind of conversion should be done in order to match each other? So then we'll have a meta study ..for each biobank —> mapping
 * So we have available 5 biobanks —> project on a single parameter —> bigger statistical analysis  .
 * How to model it ?
 * RDF rules?
 * parameter in one biobank / corresponding parameter in the other biobank ?
 * a potential pilot would be like to

 1. take 2 pheno DBs ,
 1. fill with lifelines data ,
 1. query that merges the set —> maybe a sparql query ?
 1. different question