Temporary Bioinformatician for the project SeqAfrica – DTU Food

Job title: Temporary Bioinformatician for the project SeqAfrica – DTU Food

Company: Danmarks Tekniske Universitet


Job description: Job Category: TAPJob Description:Bioinformatician to support whole genome sequencing capacity building in Africa.Do you have experience with whole genome sequencing (WGS) data quality control and analysis from bacterial isolates? Are you also interested in helping low and middle-income countries scale up genomics for antimicrobial resistance (AMR)? The Research Group for Global Capacity Building (GloCaB) is looking for an experienced bioinformatician to join our team working with WGS capacity building in Africa.The job
We are seeking a dynamic and experienced Bioinformatician to support the analysis of single isolate genomes and to contribute to the development, expansion, and implementation of whole genome sequencing (WGS) and bioinformatics capacity for antimicrobial resistance (AMR) surveillance in regional centres and sentinel sites across Africa. This work is part of a Fleming Fund-supported initiative aimed at enhancing genomic capacity and surveillance systems.In this role, you will contribute to improving AMR surveillance in Africa by strengthening existing sequencing infrastructure through the deployment of equipment, training of local personnel, and bioinformatics analysis of WGS data. The ultimate goal is to generate quality-assured AMR results from the genomic characterization of bacterial isolates.You will join an international and interdisciplinary team working closely with global stakeholders including the EU, WHO, and FAO. We offer a rewarding and challenging position in a highly collaborative and globally engaged environment.Key responsibilities

• Handle and analyze WGS data from both short- and long-read technologies
• Organize data analyses and produce summary reports
• Evaluate WGS data quality from laboratories participating in Genomic Proficiency Tests (GPT)
• Benchmark and assess bioinformatics tools for WGS analysis
• Support AMR annotation and bacterial typing from single isolate genomes
• Develop WGS protocols for implementation at regional and sentinel laboratories in Africa
• Provide bioinformatics and laboratory training in Africa and Europe, including:

• MinION sequencing workflows
• Bioinformatics analysis
• Outbreak and cluster analysis
• Online and in-person capacity-building sessions.

What we are looking for
You have hands-on experience with field sequencing using Oxford Nanopore Technologies (MinION), bioinformatic analysis of whole genome sequencing (WGS) data, and identifying antimicrobial resistance (AMR) determinants. It’s a big plus if you’ve also trained non-bioinformaticians in both lab-based MinION sequencing and bioinformatics analysis.You hold a Master’s degree in Bioinformatics or a closely related field, have experience in microbiology and wet-lab sequencing, and bring at least three years of relevant work experience.Essential expertise

• Documented experience with WGS analysis, data visualization, and AMR gene annotation
• Laboratory experience with MinION sequencing
• Proficiency in R, Python, and Unix (bash/shell) environments
• Experience working on HPC clusters (e.g., Computerome)
• Demonstrated experience in providing bioinformatics support to non-specialists
• Strong background in training and capacity-building, especially in low- and middle-income countries
• Ability to work independently and proactively in a cross-disciplinary, international environment
• Excellent planning and organizational skills; ability to meet formal requirements and timelines
• Fluent English communication skills, both oral and written
• Experience in preparing or contributing to scientific manuscripts is a plus.

What we expect from you

• Experience translating complex data into policy-relevant or actionable insights
• Strong interpersonal skills and a collaborative mindset
• Ability to simplify complex bioinformatics concepts for diverse audiences
• Willingness to travel internationally for training and project meetings.

Qualifications

• Experience in ONT sequencing
• Demonstrated experience analyzing short- and long-read sequencing data
• Experience building or customizing automated pipelines for QC and downstream analysis
• Strong understanding of bacterial typing, AMR gene detection, and cluster analysis
• Prior experience working in capacity-building projects is an advantage
• Excellent communication skills and fluent in English, oral and written.

What we offer in return
In GloCaB, we collaborate globally with researchers, clinicians, veterinarians and food laboratories, supporting them with for example, WGS, genomic analysis and expertise in AMR and we build capacity related to surveillance of AMR in multiple low- and middle-income countries.
As acknowledged reference laboratory for AMR for EU, WHO and FAO, we work with various efforts including:

• Advisory services and capacity building to other national reference laboratories and authorities, international and supranational institutions, and agencies
• Verification of phenotypic and genotypic antimicrobial susceptibility testing
• External quality assurance (EQA) and genomic proficiency test (GPT) schemes.

DTU is a leading technical university globally recognized for the excellence of its research, education, innovation and scientific advice. We offer a rewarding and challenging job in an international environment and the opportunity to work with colleagues who are experts in their field.
We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility.You can read more about the Institute at and about the research group at .Salary and appointment terms
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.The position is a full-time position. Starting date is 1 September 2025 (or according to mutual agreement).The position is temporary, as it is a project-based employment under the SeqAfrica project, and the employment will end upon completion of the project. The estimated end date is 31 March 2026. The final end date will depend on the project’s duration and will be determined on an ongoing basis as the project progressesThe workplace is DTU Lyngby Campus.Application and contact
Please submit your online application no later than 27 May 2025. Open the “Apply now” link, fill out the form and attach your motivated application, CV and exam certificates.If you would like additional information about the position, please contact Professor Rene Hendriksen, mob. 22 45 07 63 /Applications 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.DTU National Food Institute
DTU National Food Institute conducts research into and disseminates – through advice, innovation and teaching – sustainable and value-creating solutions in the area of food and health for the benefit of society. The vision is to make a difference by generating future prosperity through research into food and health. The institute works to prevent disease and promote health, develop new and better food products for a growing population and create sustainable technological solutions, including biosolutions. The institute’s tasks are carried out in interdisciplinary collaboration within e.g. nutrition, chemistry, toxicology, microbiology, epidemiology, modelling, and technology. This is achieved through a strong academic environment of international top class with correspondingly skilled researchers and employees. The Institute employs approximately 350 staff membersTechnology 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 mission to develop and create value using science and engineering to benefit society. That mission lives on today. DTU has 13,500 students and 6,000 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. DTU has campuses in all parts of Denmark and in Greenland, and we collaborate with the best universities around the world.

Expected salary:

Location: Kongens Lyngby, Hovedstaden – Lyngby, Midtjylland

Job date: Thu, 15 May 2025 02:52:57 GMT

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