LarKC Pharma workshop
The workshop was held on 19th and 20th April 2011 at High Performance Computing Center Stuttgart (HLRS), Germany, http://www.hlrs.de/
Objectives
The pharma workshop was based on previous LarKC tutorials and customized for drug development/discovery participants. The workshop gave participants the basic skills required to install and run their own experiments on the LarKC platform. Also some basics around how to develop your own plug-ins for the LarKC platform were shared.
Organization
?AstraZeneca R&D
Participants
Organization |
Person |
Contact |
Pharma Companies |
||
?AstraZeneca R&D |
- Åsa H Ström |
|
|
- Martin Karpefors |
|
|
- Martin Persson |
|
Bayer Schering Pharma AG |
- Henrik Seidel |
|
Merck KGaA |
- Abdul Mateen Rajput |
|
Semantic Web companies |
||
Talis Systems Ltd. |
- Tim Hodson |
|
derivo GmbH |
- Thorsten Liebig |
|
ontoprise GmbH |
- Eva Maria Kiss |
|
fluid Operations AG |
- Peter Haase |
|
|
- Tobias Mathäß |
|
?ExpertMaker |
- Lars Hård |
|
|
- Sofia Hörberg |
|
Academic organizations |
||
University of Sheffield |
- Danica Damljanovic |
|
University Pompeu Fabra |
- MANUEL PASTOR |
|
Royal Society of Chemistry, ?ChemSpider |
- Valery Tkachenko |
|
|
- Colin Batchelo |
|
University of Manchester |
- Alasdair Gray |
|
University of Vienna, Pharmacoinformatics |
- Nathan (Vasanthanathan Poongavanam) |
|
German Cancer Research Center (dkfz) |
- Yvonne Koch |
|
Rebholz Group, European Bioinformatics Institute, Cambridge UK |
- Christoph Grabmueller |
|
|
|
|
Contact
please visit our LinkedIn discussion group
Preparations to run your own LarKC workflow
will come soon
Agenda
Tuesday, April 19th:
13:00 - 13:15: Welcome and introductions[Bastian Koller, Matthias Assel, Bosse Anderson]
13:15 - 14:00: LarKC Platform: Architecture, Features, etc. [Matthias Assel, HLRS]
14:00 - 14:30: Hands-on 1: Starting/Setting up the platform and running a simple, pre-defined workflow
14:30 - 15:00: Coffee break
15:00 - 16:00: Hands-on 2: Developing a simple plug-in, creating a new workflow and running it [Alexey Cheptsov, HLRS]
16:00 - 17:00:Linked Life Data: Knowledge Extraction and Semantic data integration in the pharmaceutical domain [Vassil Momtchev, Ontotext]
17:00 - 17:30: LarKC at AstraZeneca[Bosse Andersson, AstraZeneca]
17:30 - 18:00: Discussion and Sum up
19:30 - …: Social dinner
Wednesday, April 20th:
9:00 – 10:00: Hand-on 3: Integrating external/internal repositories/data sources into LarKC [Vassil Momtchev, Ontotext]
10:00 – 10:30: Coffee break
10:30 - 11:00: Knowledge management/semantic reasoning at Merck KGaA[Abdul Mateen Rajput, Merck KGaA]
11:00 – 11:30: Introductions by participating Semantic Web companies: Talis, ChemSpider, derivo, ontoprise, fluidOps and ExpertMaker
11:30-13:00: Hands-on 4: Querying the LLD repository with LarKC
13:00 – 14:00: Lunch break
14:00-15:00: Causal Mining with LarKC [Michael Witbrock, Cycorp Inc]
15:00 - 15:30: LarKC, future opportunities and OpenPhacts [Manuel Pastor CADD laboratory at UPF & OpenPhacts, Bosse Andersson AstraZeneca]
15:30 - 16:00: Final discussion, next steps...