Join DTU as a Bioinformatician for Whole Genome Sequencing (WGS) Data Analysis in Antimicrobial Resistance (AMR)

Do you have expertise in whole genome sequencing (WGS) data quality control and analysis from bacterial isolates? Are you passionate about genomics and antimicrobial resistance (AMR)? If so, the Research Group for Global Capacity Building (GloCaB) at DTU is looking for a talented bioinformatician. This position involves working with the EU, WHO, and FAO as a reference laboratory for AMR.

About GloCaB

GloCaB offers advisory services to national reference laboratories and authorities, international institutions, and agencies. As part of our responsibilities, we provide:

• Advisory services for governmental and supranational institutions.
• Verification of phenotypic and genotypic antimicrobial susceptibility testing.
• External quality assurance (EQA) and genomic proficiency test (PT) schemes.

We collaborate globally with researchers, clinicians, veterinarians, and food laboratories, focusing on WGS, genomic analysis, and AMR expertise. We build capacity for AMR surveillance in multiple low- and middle-income countries.

Key Responsibilities

As our new colleague, your primary areas of responsibility will include:

• Constructing and maintaining pipelines on an HPC cluster, extending current ones from short read technology (Illumina) to include long read technology (Oxford Nanopore).
• Handling and analyzing WGS (long and short read technologies) and metagenomics data.
• Organizing data analysis, writing reports/manuscripts, and producing plots summarizing main findings.
• Presenting results orally to a wider audience.
• Assisting in the evaluation of WGS data quality for EQAs and genomic PTs.
• Performing benchmarking of tools outputting WGS analysis results.
• Providing bioinformatics support related to single isolate genomes and AMR annotation.
• Supporting and assisting in organizing teaching and training in WGS, including sequencing quality control and various genomic analysis tasks.
• Traveling occasionally for work-related activities.

Required Qualifications

The ideal candidate for this position should possess:

• A Master’s degree in bioinformatics or equivalent for a Research Assistant; a PhD degree in bioinformatics or equivalent for a Postdoc.
• A strong background in microbiology, molecular biology, genetics, and genomics.

Essential expertise includes:

• Documented experience in WGS of bacterial isolates and subsequent bioinformatics analysis.
• Experience with next- and third-generation sequencing data quality control.
• Knowledge in bacterial AMR gene annotation and typing.
• Experience working on HPC clusters, preferably with Computerome.
• Proficiency in Bash, R, or Python.
• Experience in providing bioinformatics support to non-bioinformaticians and in training them.
• Ability to plan and execute tasks according to formal requirements and timelines.
• Excellent communication skills in English, both oral and written.

Additional skills that are a plus include familiarity with metagenomic data analysis and machine learning techniques.

What We Offer

DTU is a globally recognized technical university known for excellence in research, education, innovation, and scientific advice. We offer a rewarding and challenging job in an international and collaborative environment.

You will benefit from:

• Opportunities to work with experts in your field.
• Academic excellence in an environment characterized by collegial respect and academic freedom.

Employment Details

The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The position will be customized according to the candidate's profile (Research Assistant or Postdoc).

We offer a full-time position for a period of 3 years starting on 1 September 2024 or by mutual agreement. The workplace is DTU Lyngby Campus, Building 204, Henrik Dams Alle,