[BBC] Postdoc bioinformatics/data science - FAIR data and reproducible science

[Patrick Deelen]

Working environment

The postdoc will be part of the Genomics Coordination Centre (GCC), the
‘big data’ research & service hub of the University Medical Centre
Groningen (UMCG), and the Franke-Swertz Lab research group (
http://systemsgenetics.nl), situated in the Genetics department of the
UMCG. These are exciting times in biotechnology that are producing
terabytes of Biobank, DNA, mutation, protein, molecular and phenotype
profile data. This wealth of data offers unprecedented possibilities for
new ways of predicting both disease and health status, but also presents
big challenges in how to share, (re)use and analyse all this new, and
sensitive, information. Our 25-member team is working together on diverse
local, national and EU projects to produce clever software that expedites
medical research and improves healthcare using open source web applications
(see http://github.com/molgenis <https://github.com/molgenis>), (HPC)
analysis pipelines and large-scale e-infrastructure (cluster, storage,
cloud). Through these efforts the GCC contributes to the goal of making
scientific research data meet FAIR (Find Able, Accessible, Interoperable,
Reusable) principles.
Job description

We are looking for a postdoc data scientist to develop models, techniques
and tools for promoting the re-use and reproducibility of scientific
research in accordance with FAIR principles. In recent years, the GCC has
been heavily invested in developing smart tools to integrate data using
ontologies and semantic search methods (Biobank Connect, SORTA,
MOLGENIS/connect) and in developing data models and data structures that
promote re-use (Observ-OM, MIABIS, FAIR) and sharing of data (Beacons,
CafeVariome). Our work has produced many top-quality MOLGENIS open source
software applications, and writing the publications about these tools is
part of this postdoc. We expect that this research line will develop
further through our (inter)national collaborations with institutes in the
BBMRI, CORBEL, ELIXIR, DTL and RD-connect networks, and in cooperation with
the six-person MOLGENIS open source team and 20-person Franke-Swertz Lab to
produce widely-applicable reusable e-infrastructure, particularly for the
life sciences and personalized medicine.
What do we need

The ideal candidate is a PhD in (Bio)informatics or Data Science who:

   - Has a passion for data modelling/ontologies/integration/re-use
   - Communicates easily with colleagues and collaborators, primarily in
   English
   - Can write publications about our methods, software and applications
   - Can implement methods in Java services with Javascript user interfaces
   - Can test these in practice in the context of large-scale ‘top-level’
   biomedical research
   - Collaborates well in international consortia and with researchers from
   other disciplines
   - Is prepared to travel

Experience in large-scale biomedical studies involving Biobanks, NGS,
molecular experiments and phenotype data and with the resulting
bioinformatic data integration and (HPC) analysis pipelines, as well as
knowledge of, for example, semantic web/linked data, REST/JSON-LD, linked
data fragments, standards in biosharing.org, machine learning and
biomedical ontologies is a plus.

The UMCG has a preventive Hepatitis B policy. You may be required to build
up sufficient protection against Hepatitis B before you can be appointed.
Vaccination is provided by the UMCG if necessary.
What do we offer

An appointment of 0.8-1.0 FTE as a postdoctoral fellow for two years (with
a possible extension), embedding in a dynamic department of top genetic
researchers (including a Spinoza prize winner), a large group of
programmers to publish with, a service desk that assists a wide range of
researchers, and the opportunity to work both in Europe and
internationally.

Your salary will be a maximum of € 4.152,- gross per month (scale 10),
depending on your qualifications and relevant experience, based on a
full-time appointment. In addition, the UMCG will offer you 8% holiday pay,
an 8.3% end-of-year bonus and a development budget. The terms of employment
comply with the Collective Labour Agreement for Medical Centers (CAO-UMC).

*For more information please contact:*
Prof. Morris Swertz, Head of the Genomics Coordination Centre, by telephone
+31 (0) 50 361 7100 or email: m.a.swertz at rug.nl (please do not use for
applications)
S. Scholtens, manager, telephone +31 (0)50 361 1087 op email:
s.scholtens at umcg.nl (please do not use for applications)
Applying for a job

http://www.umcg.nl/NL/UMCG/Werken_in_het_UMCG/Vacatures/Externe_vacatures/Medischwetenschappelijk_personeel/Paginas/Postdoc_bioinformaticsdata_science_-_FAIR_data_and_reproducible_science.aspx?nieuwsbriefType=Vacature&nieuwsbriefTitel=Vacatures+per+e-mail+24+maart+2017&ns_type=clickin
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