Detailed information about the course

[ Back ]
Title

Using Semantic Web for faster (Bio)-Research

Dates

November 30 to December 3, 2015 (4th day is a hackathon)

Lang EN Workshop language is English
Responsable de l'activité

Ioannis Xenarios

Organizer(s)

Dr. Jerven Bolleman, SIB / Swiss-Prot

Speakers

Frédéric Bastian, SIB / Evolutionary Bioinformatics, Lausanne, CH
Jerven Bolleman, SIB / Swiss-Prot, Geneva, CH
Raoul Bonnal, INGM, Milano, IT
Marco Brandizi, EMBL-EBI, Hinxton, UK
Erik Garrison, Sanger Centre, Cambridge, UK
Axel Ngonga, Universität Leipzig, DE
Núria Queralt Rosinach, Universitat Pompeu Fabr, Barcelona, ES
Andrea Splendiani, Novartis, CH
Kieron Taylor, EMBL-EBI, Hinxton, UK
Mark Wilkinson, CBGP, Madrid, ES

Description

Accessing and using existing public data is a hassle, yet it is crucial for designing good experiments. This 4 day course, co-organized by SIB and CUSO/Staromics, will teach PhD students on how to use semantic web technologies for their own research.It includes an in-depth exploration of Semantic Web concepts such as RDF (data modelling), SPARQL (asking questions on your data), OWL (reasoning for deducing new facts about your data)

 

The course will teach you how to use these technologies in your day to day research, as well as how you can share your data with the rest of the world.

The course will also include:

  • Modeling data tips and tricks
  • Using the UniProt sparql endpoint for maximum efficiency
  • Managing experimental results
  • How to deploy SPARQL based software in a secure and efficient manner.
  • How can you use OWL reasoning with RDF to test different hypothesis
  • Linking programs with data, combining webservices with SPARQL via OWL
  • Using BioRuby tools with SPARQL and RDF data
  • Small and BigData better when combined

 

The fourth day will be dedicated to a hackathon session. Here you and others have time to put into practice the theory of this course. Together with the tutors we will transform the data you use in your PhD into prototypical RDF for further development on your own. The hackathon is free and open to people who would like to have an RDF representation of their data. People wanting to join ONLY to the hackathon do not need to register online, but please send an email to @

so that we know the approximate number of participants.

Location

Geneva (Classroom S1-2, CMU, University of Geneva, Rue Michel-Servet 1)

Map

Map

Information

See also: edu.isb-sib.ch

Expenses

Reimbursement: StarOmics PhD students are eligible for reimbursement of incurred travel expenses by train (half-fare card, and 2nd class) and meals. Please send the original tickets (no copies, except for the general abonnement) and receipts with the reimbursement form to Corinne Dentan. If you are not a CUSO PhD student: You will be billed for the course (CHF 100.- academic / CHF 500.- industry).

Registration

CUSO PhD students: through your MyCUSO account.  External participants (non-CUSO PhD students, post-docs, etc...): use the icon "registration" at top of page and the last gray box "non-CUSO student" ("personne hors myCUSO").

Places

25

Deadline for registration 20.11.2015
Joint activity joint
short-url short URL

short-url URL onepage