BioSB Course on Managing and Integrating Life Science Information: Approaches using Linked Data and Semantics (4^th edition)

Course coordinators: Marco Roos, Katy Wolstencroft

Date: 30 November – 4 December 2015
Location: SURF, Utrecht, the Netherlands
Website: http://biosb.nl/education/course-portfolio/course-managing-and-integrating-information-in-the-life-sciences/.
Registration: http://biosb.nl/education/course-portfolio/course-managing-and-integrating-information-in-the-life-sciences/enrollment-milsi-2015/ .Please not that this course is free of charge for PhDs who are or will become a member of the  BioSB research school, and with a reduced fee for other researchers who are or will  become a member of BioSB. More information about the BioSB membership can be found here: http://biosb.nl/about/members/biosb-membership-information/ .
Course flyer: http://biosb.nl/wp-content/uploads/2013/08/Wolstencroft_Roos_Course_2015_June.pdf

Target audience
This course is for bioinformaticians who would like to learn about leading-edge data and knowledge integration solutions. You will learn (1) powerful and flexible approaches to data and information management for your bioinformatics application (Semantic Web and Linked Data), (2) how to work with data across remote locations, for instance by applying Web Services and workflows, (3) how to publish your own data to make it available and reusable for the rest of the community. We assume a basic understanding of bioinformatics programming for the hands on sessions. It would suit previous user participants of BYOD meetings who would like more hands-on experience of data integration. It would also suit data providers who would like to explore new ways of serving their data or integrating it with other resources

Description
The amount of Life Science data available in the public domain is a vast and growing resource for bioinformatics research. There are over 20 million papers in PubMed and over 1600 biological databases. In many cases finding and applying the information from these resources is far from trivial. Following this course will show you techniques for working with these distributed resources, which includes using the web of Linked data and scientific workflows. It will also focus on methods for using or linking your own data into this large distributed Semantic Web of resources, in order to ensure that your data is FAIR (Findable, Accessible, Interoperable and Reusable).

This course introduces modern techniques for the management of life science data and knowledge for bioinformatics applications. After following this course students should be able to start creating their first applications based on these technologies or make more informed design decisions for their current application.

In this course you will learn about:

1.       Linked Data and the Semantic Web technologies that underpin it

2.       How you can use Linked Data for data and knowledge integration in the Life Sciences

3.       Available Linked Data resources in the public domain and large-scale projects that use these resources

4.       How you can integrate your own data with Linked Data resources

5.       How you can combine data integration and analysis over distributed resources, using Web Services and workflows

Lecturers:  Marco Roos, Katy Wolstencroft, Frank van Harmelen, Paul Groth, Simon Jupp, Jesse van Dam, and others TBC
.
Programme

Monday – Introduction to Semantic Interoperability and the Semantic Web

The Semantic Web primer, an introduction to RDF and Linked Data

Tuesday – The Semantic Web in Use. Querying public Linked Data resources

Querying Linked Data with SPARQL, using public Linked Data resources from the EBI

Wednesday – The Semantic web in use (2) – Systems and guidelines

Guidelines and best practices for Linked Data, Case study Open PHACTS – using Linked Data for research

Thursday – Making Data Understandable and Searchable

Methods for annotating and providing Linked Data, using and understanding ontologies

Friday – Using, Integrating and Analysing Data

Using scientific workflows and web services to integrate and analyse Linked Data and other kinds of data

 

 

 

Dr. Celia W.G. van Gelder

Education Manager BioSB

Coordinator Education CMBI

Programme Manager Learning DTL/ELIXIR-NL

tel. +31613375327

e-mail: Celia.vanGelder@radboudumc.nl

websites: www.nbic.nl,  www.biosb.nl, www.cmbi.ru.nl, www.dtls.nl

 

Postal address:

CMBI 260

Radboud University Nijmegen-Medical Centre

PO Box 9101

6500 HB Nijmegen The Netherlands