Changes between Version 4 and Version 5 of BBMRI

Timestamp:

2010-11-01T09:36:25+01:00 (14 years ago)

Author:

antonak

Comment:

--

BBMRI

@@ -1 +1 @@
 = BBMRI =
-=  =
-== Theme 1: fill the database ==
-==== First goal: get !LifeLines features included in BBMRI biobank. ====
- * get BBMRI catalog running : (done)
 
- * import the Excel (done)
+== Feedback group: ==
+ * BBMRI steering committee
+ * Collaboration with Marco Roos (semweb interface + data on biobankers)
 
- * biobank is a kind of panel
+== 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
 
- * Lifelines is one of the biobanks
+== 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
 
- * Get from Joris is a Excel export (done)
+== Task 3: Add semantic search ==
+==== Primary goal: to have the semantic search available for BBMRI catalog ====
+ * 
 
-==== Next goal: import more biobank information which we get from our BBMRI-EU colleagues ====
+== 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 ====
@@ -35 +54 @@
 
 == (Notes) ==
- * look into data 
+ * 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  . 
+ * 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 
+ * a potential pilot would be like to
 
- 1. take 2 pheno DBs , 
+ 1. take 2 pheno DBs ,
  1. fill with lifelines data ,
  1. query that merges the set —> maybe a sparql query ?
- 1. different question 
+ 1. different question