Bioinformatician for the EU Reference Laboratory for Antimicrobial Resistance (EURL-AR) with Experience in Bacterial Whole Genome Sequencing (WGS) Data Analysis - DTU Food

Are you experienced in WGS data quality control and analysis from bacterial isolates? Do you have a strong interest in genomics and antimicrobial resistance (AMR)? The Research Group for Global Capacity Building (GloCaB) is looking for a dedicated bioinformatician to join our team.

Antimicrobial resistance is one of the most pressing global health challenges, driving a silent pandemic that affects both human and animal health. Our group plays a key role as an EU, WHO, and FAO reference laboratory for antimicrobial resistance. We provide scientific advisory services, as well as applied and implementation research, to National Reference Laboratories, international organizations, and supranational institutions such as the European Commission and the European Food Safety Authority. Our work focuses on strengthening global capacity for phenotypic and genomic surveillance of antimicrobial resistance, including the development of proficiency tests, external quality assurance, and laboratory training programs.

The Job
As our new colleague, your primary responsibilities will include:

• Developing, maintaining, and extending bioinformatic pipelines, integrating data from multiple sequencing technologies.
• Analyze and evaluate WGS data to support research and capacity-building objectives, including participation in external quality assessments and genomic proficiency tests.
• Providing bioinformatics support for bacterial single-isolate genome and AMR analysis.
• Assist in organizing and delivering training (both in-person and online) on bioinformatics capacity-building activities for our international network.
• Organize data analysis, write reports and manuscripts, and create visualizations to summarize findings.
• Presenting results orally to a broad audience.
• Occasional travel may be required.

Our expectations of you
Required qualifications:

• At least a Master’s degree in bioinformatics, computational biology, or a related field.
• Proficiency in English (both oral and written) and good communication skills.

Essential expertise:

• Strong knowledge of sequencing analysis pipelines for both short- and long-read technologies.
• Experience in bioinformatic WGS data analysis and interpretation from bacterial isolates for AMR surveillance and/or genomic epidemiology.
• Proficiency in relevant bioinformatics tools and programming languages (e.g., Python, R, Bash).
• Experience working in a Unix/Linux environment, including setting up and managing High Performance Computing (HPC) clusters.
• Ability to support non-bioinformaticians and deliver training in WGS data analysis.
• Skills in data management, visualization, and statistical analysis.
• Proven ability to plan and execute complex tasks within set deadlines.
• Demonstrated ability to collaborate in large, international, and cross-disciplinary teams.

Desirable expertise:

• Experience in developing pipelines for automating quality control and downstream analyses using workflow management systems (e.g., Nextflow, Snakemake).
• Familiarity with metagenomic data analysis and machine learning techniques.
• Experience in authoring scientific manuscripts for peer reviewed journals. 

What we offer in return
We offer an interesting and challenging job in an international atmosphere with the focus on scientific advice, teaching and research for the benefit of the surrounding community. We place emphasis on a high level of professionalism among our staff, so skills development is an integral part of our organisation. We offer a great flexibility in the position. In the area of technical and natural sciences, DTU is one of the leading research and education institutions in Europe.

You can read more about the Institute at www.food.dtu.dk and about the research group at www.food.dtu.dk/english/research/global-capacity-building

Salary and terms of employment
The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union. Based on your qualifications you will either be employed as Research Assistant or Postdoc. Your tasks will be adjusted accordingly.

The candidate is expected to start as soon as possible. The period of employment ends by 31/12/2026. 

You can read more about career paths at DTU here.

Further information
Further information may be obtained from Professor Rene Hendriksen 22 45 07 63 / rshe@food.dtu.dk. 

If you are applying from abroad, you may find useful information on working in Denmark and at DTU at DTU – Moving to Denmark. 

Application procedure
Please submit your online application no later than 3 April 2025 (23:59 Danish time).

Applications must be submitted as one PDF file containing all materials to be given consideration. To apply, please open the link "Apply now", fill out the online application form, and attach all your materials in English in one PDF file.

The application must include:

• Application (cover letter)
• CV
• Diploma (MSc)
• Diploma (PhD – if applicable)
• List of publications (if applicable)

Applications and enclosures received after the deadline will not be considered.

All interested candidates irrespective of age, gender, disability, race, religion or ethnic background are encouraged to apply. As DTU works with research in critical technology, which is subject to special rules for security and export control, open-source background checks may be conducted on qualified candidates for the position.

The National Food Institute researches and communicates sustainable and value-adding solutions in the areas of food and health for the benefit of society and industry. As DTU works with research in critical technology, which is subject to special rules for security and export control, open-source background checks may be conducted on qualified candidates for the position.

Technology for people
DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN’s 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear vision to develop and create value using science and engineering to benefit society. That vision lives on today. DTU has 12,000 students and 6,000 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. Our main campus is in Kgs. Lyngby north of Copenhagen and we have campuses in Roskilde and Ballerup and in Sisimiut in Greenland.