Data scientist for the National Health Data Science Sandbox for Training and Research

Do you want to contribute to an ambitious initiative to strengthen the health data science infrastructure in Denmark?

The Protein Research Group at SDU in Odense, Denmark is hiring a data scientist to develop a clinical proteomics data sandbox based on mass spectrometry datasets and the Danish academic cloud platform (UCloud). This effort is part of a collaborative project, the National Health Data Science Sandbox for Training and Research, and the data scientist will frequently interact with other data scientists at SDU and become part of the team of  the national sandbox project.

The position is initially for 2 years, with the possibility of extension. The start date is September 1, 2022, or soon thereafter.

The National Health Data Science Sandbox for Training and Research

Research and training in health data science is greatly needed but is complicated by the person-sensitive nature of health data. We are establishing a national infrastructure, a “sandbox”, in which students and researchers can work with data without any risk of leaking personal information. In the sandbox, users will have access to synthetic data that looks like real data as well as tools, computer programs and supercomputing resources, exactly as if they worked on actual health data, and therefore it will be easy to move from the sandbox to real applications. The Sandbox is funded by the Novo Nordisk Foundation and is a national collaboration between Danish Universities.

The Sandbox project distributes the coordination of different subareas within its partners:

SDU: Coordinates tools and data for proteomics and integration with UCloud (cloud.sdu.dk)

KU: Coordinates tools and data for transcriptomics, single cell and image analysis

AAU: Coordinates health register data and tools

AU: Coordinates tools and data in genomics and online teaching tools

DTU: Coordinates data and tool curation, social media and wearables data, interoperability

The Protein Research Group at SDU is internationally recognized for functional proteomics and mass spectrometry research using state-of-the-art technologies and computational methods (https://www.sdu.dk/en/forskning/protein). We offer a thriving, interdisciplinary and ambitious international working environment where openness, cooperation and mutual respect are key values.

Data Scientist

As a data scientist within the SDU team, you will be responsible for developing the clinical proteomics part of the sandbox infrastructure and for supporting its users. You will mainly be responsible for identifying suitable clinical data and state-of-the art software tools, designing proteomics data analysis workflows and integrating these in the cloud-based sandbox infrastructure to facilitate research and training in computational clinical proteomics. You will work closely together with the four data scientists at the other participating universities, and with SDU proteomics researchers. The primary workplace is SDU at Odense.

Your academic profile
You should hold a MSc or a PhD degree (or similar level of experience) in bioinformatics, computer science, biostatistics, or a field of science relating to data science. You are expected to have:

• Strong programming skill in one of the main coding languages
• Experience in or willingness to learn Python, R and Jupyter Notebooks
• Working experience with Linux and bash
• Familiarity with SQL and/or MongoDB database technologies
• Willingness to be integrated in an interdisciplinary research team

Additionally, you should be able to tick off several of these points:

• You have experience with: 
  • Proteomics data analysis (LC-MS, quantification, meta-analysis)
  • High-performance computing platforms
  • Cloud computing and preferably knowledge of UCloud
  • Simulation, generation of synthetic data, pseudonymization
• You are familiar with sensitive medical data and GDPR compliance rules.
• You are well-versed in working with large datasets, e.g., storage, data management, and computing

Valued personal competencies:

• Independent, curious and creative
• Outgoing and enjoying providing advice within your field of expertise
• Proficient in English
• Motivated by interdisciplinary research projects
• Flexible and interested in taking on different tasks

Contact: Professor Ole Nørregaard Jensen, PhD:  jenseno@bmb.sdu.dk

Terms of Employment:
The employment will be as academic officer in accordance with the provisions of the collective agreement between the Danish Government and AC (the Danish Confederation of Professional Associations). Your salary level will be based on seniority, and a supplement may be negotiated. There is a monthly contribution to a pension fund (17.1% of the salary).

How to apply:
Your online application must be submitted in English.
The application must include:

• A short letter of motivation
• Curriculum vitae including publications
• Masters and PhD diploma (or equivalent)
• Two references and/or letters of recommendation

Application deadline: Monday the 27th of June 2022 at 23:59 CEST.

Interviews will take place on 4-5 July, 2022.

Please note that only applications submitted online by the deadline and consisting of the above listed documents will be considered.

Applications and/or any material received after the deadline will not be taken into consideration.

Working hours: Full time

Location:

University of Southern Denmark
Department of Biochemistry and Molecular Biology
Campusvej 55, DK-5230 Odense M
Denmark

Attached files must be in Adobe PDF format. Cover letter and CV can contain max. 5 Mb.

All documents in connection with the application should not contain CPR number (civil registration number) – in that case, the CPR number must be crossed out.

We recommend that you read how to apply before you apply.

The University wishes our staff to reflect the diversity of society and thus welcomes applications from all qualified candidates regardless of personal background.

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