The SIB Swiss Institute of Bioinformatics is an internationally recognized non-profit organization, dedicated to biological and biomedical data science. Its data scientists are passionate about creating knowledge and solving complex questions in many fields, from biodiversity and evolution to medicine. They provide essential databases and software platforms as well as bioinformatics expertise and services to academic, clinical, and industry groups. SIB federates the Swiss bioinformatics community of some 800 scientists, encouraging collaboration and knowledge sharing. The Institute contributes to keeping Switzerland at the forefront of innovation by fostering progress in biological research and enhancing health.
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To strengthen our Data Interoperability Team, in Basel, we are looking for a Scientific Coordinator / Knowledge Graph Engineer (80-100%).
Scientific Coordinator / Knowledge Graph Engineer (80-100%)
SIB Swiss Institute of Bioinformatics
80% - 100%
Type of contract
To leverage the potential of health-related data for better disease prevention, improved medical practice and ground-breaking innovative treatments, transdisciplinary scientific research, as well as specific infrastructural efforts are necessary. With the overall goal of the Swiss Personalized Health Network (SPHN) initiative to make health-data FAIR (findable, accessible, interoperable, and re-useable) and foster use and exchange of health data for research, the SIB’s Personalized Health Informatics Group is setting up infrastructures and innovative solutions to facilitate data analysis. The PHI Group is at the core of the geographically dispersed partners in Swiss hospitals, research- and support institutions.
- Lead the design, development and implementation of an eco-system within SPHN to use semantic graph technologies for organizing data, encompassing terminology service, SPARQL endpoints, tool-stack for ontology representation and visualization, etc.;
- Contribute to the design, development, and implementation of the SPHN knowledge graph including semantic data annotation and re-use of ontologies and standards;
- Provide consultation and support for data-providers and researchers in the SPHN context;
- Closely collaborate with SPHN and related stakeholders with regard to the implementation of Semantic Web Technologies in Switzerland;
- Write documentation, develop and provide tutorials and trainings.
In return for your work, the SIB offers a flexible, dynamic working environment, opportunities for personal and professional development, and a good work-life balance. The working place is in Basel (in close proximity to the SBB station). More information about the PHI Group and its activities is available at:
You have a Master’s degree with at least 3-5 years of relevant work experience or a PhD in Computer Science, Informatics, Bioinformatics or equivalent and additional work experience in a relevant field.
You have a solid understanding of Semantic Web Technologies, such as RDF, SPARQL, OWL and related tools, such as GraphDB, WebProtégé, Fuseki or others. You have previous experience in graph (data) analytics and inferencing. Ideally you have worked with clinical data related standards and ontologies such as LOINC or SNOMED CT. You have proven experience in at least one programming language (preferably Python) interacting with Semantic Web Technologies (RDFlib, pyLODE).
You have demonstrable experience in project management in the healthcare, pharmaceutical or academic life-science setting. Experience in setting up a graph-based ecosystem is essential. You are familiar using CI/CD and container infrastructures.
A collaborative spirit and a supportive, solution-oriented attitude is key to succeed in this role. Strong problem-solving skills are among your strengths. You are a self-starter and can work semi-independently, while also being an excellent team player. You are flexible and adaptable, and able to cope well with new challenges and moving targets. Outstanding written and verbal communication skills are expected in English. Knowledge of a Swiss national language (German and/or French) is a plus.
This position may involve regular travel within Switzerland. There is some flexibility in the start date. Please get in touch for more information (Michael.Mueller@sib.swiss).
How to apply