Feb 13, 2023
UniProt is probably the largest sparql endpoint freely available in the life sciences. However, the data while central and well maintained is overwhelming. This tutorial will show people how they can use the sparql endpoint with Jupyter notebooks to answer interesting bio-chemical questions. We will focus on the data model (what is where) of UniProt and how other ontologies/databases such as the Gene Ontology, ChEBI and Rhea are reused. Each time taking a question that a researcher may ask and building different solutions on how it can be answered. Data content wise we will focus on enzymes and their activities and proteins known to be involved in human diseases.
Since 2008, the SWAT4(HC)LS Workshop has provided a platform for the presentation and discussion of the benefits and limits of applying Web-based information systems and semantic technologies in the domains of health care and life sciences. Growing steadily each year as Semantic Web applications become more widespread, SWAT4LS has been in Edinburgh (2008), Amsterdam (2009), Berlin (2010), London (2011), Paris (2012), Aveiro (SWAT4LS School organized in 2012), Edinburgh (2013) and Berlin (2014). Since 2015, SWAT4LS changed format and has been organized as a 2 day conference, preceded by a tutorial day and followed by a hackathon day (Cambridge, 2015, and Amsterdam, 2016). SWAT4(HC)LS aims at providing an open and stimulating environment that brings together researchers, both developers and users, from areas as diverse as eHealth, medical and clinical informatics, bioinformatics, cheminformatics, drug discovery, drug safety, systems biology, medical physics, data science, and biocomputing, to discuss goals, current limits and real experiences in the application of Semantic Web and Linked Data technologies to challenges in health care and life sciences. The meetings are typically very interactive and are accompanied by tutorials and a hackathon.
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