We are looking for outstanding candidates to fill a two-year, full-time position in Multiomics, Bioinformatics and Genomic Epidemiology (MBE) at the Institute (Department) of Animal and Veterinary Sciences (ANIVET), Aarhus University (AU), Denmark. The successful candidate will join our team of Multiomics, Systems biology & Bioinformatics (MSB) and will work in two related projects funded by the EU Partnership (EUP) Program for Animal Health & Welfare (EUPAHW: www.eupahw.eu/).
Key responsibilities include:
* Standardize the use of analysis tools for the mapping, annotation and analysis of whole genome sequences of hosts (e.g. cattle, pig) and pathogens (e.g. viral or bacterial or parasitic) as well as their metagenomic sequence datasets, with an overall aim of predicting and preventing infectious diseases outbreaks and for population-level surveillance.
* Identify key antimicrobial resistance (AMR) genes in mastitis pathogens and environmental samples in dairy systems, including their association with mobile genetic elements with the aim of devising a preliminary framework for risk factor analysis related to persistence of AMR, horizontal gene transfer, and dissemination between bacterial populations
* Develop robust, shareable bioinformatics pipelines for epidemio-genomic and phylogenomic analyses using genomic & metagenomic datasets
* Contribute to / assist in teaching (MSc & PhD courses) and student supervision.
>>>>Deadline for application: 28 June 2026 before 23.59 CEST<<<<
* Applicants must have a PhD in bioinformatics, genomic epidemiology, data science (AI/ML) or similar with a focus on animal health, microbiology and animal disease control.
* Proven experience in biostatistical and bioinformatic analysis of host-pathogen omics datasets with expertise in genomics (SNP genotype or WES/WGS), and metagenomics (16s rRNA and WGS) sequence data and relating them to epidemiology and pathogens transmission / virulence / risk factors.
* Knowledge and prior use of Machine Learning and AI/deep learning for G2P or genomic epidemiology analyses will be considered an asset.
* Experienced user of various QA/QC tools and bioinformatics pipelines for 16s rRNA and WGS sequence data from pathogens.
* Advanced computer programming skills in R and Python and preferably also other languages and demonstrated proficiency in UNIX, shell scripting (Bash) for automation and workflow optimization.
Please follow this link below for more details on job description, requirements, and to apply: tinyurl.com/anivet
Key Dates, Place and Contact:
* Place of work: ANIVET, AU-Viborg campus, Denmark
* Expected start date: 1 Oct 2026
* Deadline for application: 28 June 2026 before 23.59 CEST
* Candidates meeting the requirements are welcome to send informal and confidential enquiries to me.