Bioinformatician to the Center of Translational Genomics (CTG) - Hiring in process/Finished, not possible to apply

The Research Group
The Center for Translational Genomics (CTG) is a prioritized research infrastructure at the Faculty of Medicine, Lund University, part of the Clinical Genomics platform at SciLifeLab. The platform aims to offer translational and clinical researchers access to state-of-the-art methods in genomics and transcriptomics (e.g. WGS, RNA-seq and new single cell analyses) and to quickly translate new research findings into improved clinical utility in close collaboration with the regional healthcare. Locally, this is performed through close interactions with the Section for Molecular Diagnostics at Region Skåne. Within CTG, there is great expertise in Next Generation Sequencing (NGS) technologies, bioinformatics and several different disease areas, and seen from both a national and international perspective, the unit is at the technological forefront with access to very powerful sequencing instruments (e.g.Illumina NovaSeq 6000). For data processing, the center uses a dedicated high-performance computing cluster at Lund University.

At the national level, CTG and Clinical Genomics Lund are also involved in a Swedish initiative for precision medicine; Genomic Medicine Sweden, where the development of new methods for tomorrow's research and diagnostics is coordinated with the corresponding large-scale sequencing facilities at the country's other university hospitals.

We are now expanding our bioinformatics group with a driven and team-oriented bioinformatics specialist. The position is a full time position time limited to 1 year starting January 1, 2022, or according to agreement.

Work duties and area of expertise
You will be responsible for bioinformatics activities related to the Genomic Pandemic Preparedness Portfolio (G3P) project, which is a part of SciLifeLab´s Pandemic Laboratory Preparedness program.

Originating from some of the top genomics research infrastructures in Sweden, the G3P project aims at creating a resilient and nationally coordinated preparedness with regards to genomics-based analysis methods, applicable to both the current and future pandemics of viral pathogens. The methods developed may be used for multiple needs throughout a pandemic, e.g. to monitor global spread of different strains or to design more targeted and scalable diagnostic tests at earlier stages, or to identify potential vaccine escape mutations at later stages.

Within the project CTG and Clinical Genomics Lund is responsible for a work package aimed at improving existing SARS-CoV-2 bioinformatic pipelines of short-read whole-genome sequencing (WGS) data, and to develop software analysis tools for user-friendly data visualization. Depending on your background, the role may include both back- and front-end design of a web application for monitoring of viral-agnostic WGS data.

Work duties may also include more general bioinformatics tasks within the facility.

Qualifications
The position requires:

• University degree from a relevant field (i.e. with bioinformatics and genomics as a basis) or equivalent (at least 4 years) working experience in bioinformatics, from business, healthcare or academia
• Bioinformatics experience in working with sequencing data (DNA- and/or RNA-based)
• Experience in working in a terminal-based Linux environment and in at least one scripting language (eg Python, Perl or R)
• Excellent oral and written communication skills in English

Great emphasis will be placed on personal suitability. The tasks require that you are structured and have an excellent ability to prioritize at work. The work is very team-based - both internally and externally - and therefore requires very good communication and collaboration skills. In addition, you need to have the ability to work independently. We are looking for you who are unpretentious and have a service-oriented approach.

The following are desired for the position:

• Basic knowledge about clinical and translational microbiology, with particular focus on viral agents
• Experience in working with back- and/or front-end web design (e.g. Flask or React)
• Experience in working with containers (e.g. Singularity or Docker)
• Experience in working with bioinformatics workflow managers (e.g. Snakemake or Nextflow)
• Excellent oral and written communication skills in Swedish

Instructions for your application
The application must contain a personal letter describing how you fulfill the desired qualifications, a CV and diploma.

Other
The university applies individual salary setting. Please indicate your salary claim in your application.