Research Assistant (Bioinformatician) to support capacity building for the Fleming Fund project, SEQAFRICA at DTU, Denmark 2022



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Research Assistant (Bioinformatician) to support capacity building for the Fleming Fund project, SEQAFRICA at DTU Food, Technical University of Denmark, Denmark 2022

Qualification Details

We are looking for a visionary profile that thrives on turning exciting challenges into solutions based on curiosity and an open mind for entering new paths when necessary. As a formal qualification, you must have a M.Sc. degree or equivalent to apply for the research assistant position with preferably 1-3 years of work experience in a related field. Essential expertise would include:

  • documented experience with WGS, bioinformatics and visualization of genomic data
  • experience with quality assurance and EQA
  • experience working with bioinformatics pipelines for quality control
  • experience working in silico typing of bacterial strains incl. annotation of AMR genes and phylogenetics
  • proficient working in a Unix environment with bulk or batch analysis
  • experience writing R and Python scripts
  • experience working with the Danish supercomputer, Computerome or other HPC clusters
  • experience providing bioinformatics support to non-bioinformaticians
  • ability to self-manage and work independently as well as ability to plan and execute complex tasks and to engage constructively in a large, international and cross-disciplinary environment.
  • good English communication skills, oral and written.

Responsibilities/Job Description

Do you want to make an international difference in building capacity for whole genome sequencing (WGS) on the African continent by assessing the quality of local sequencing performed? The National Food Institute at DTU is looking for an ambitious bioinformatician with in-depth knowledge within the fields of genomic-based surveillance, bacterial genomics and antimicrobial resistance (AMR) to expand and strengthen WGS and bioinformatic analysis capacity in Sub-Saharan Africa. The position will be affiliated within the Fleming Fund Regional Grant project ‘SeqAfrica’, which aims at improving the surveillance of AMR in Africa by building and expanding existing sequencing capacity through instrumentation, training and bioinformatics analysis of data based on Illumina and ONT technologies. In this position, you will be part of a team addressing regional challenges to achieve continuous WGS capabilities in Africa to facilitate genomic surveillance of AMR. You would be collaborating with health organizations, international networks of diagnostic laboratories as well as a network of five regional WGS reference centers in Africa. We offer a rewarding and challenging job in an international environment supporting regional WGS reference laboratories and sentinel sites as well as our global network that involves WHO, FAO, EU and the Fleming Fund as stakeholders. The responsibilities also include being involved in international collaborative projects conducting capacity building in several countries. Experience with external quality assessments and whole genome sequencingAs our new colleague, your focus will be to assist the projects scientifically. You will be working closely with the two project managers, our five consortium partners in Africa, and will support and expand the established sequencing and bioinformatics capacity to meet the objectives and deliverables. The work will include support and assistance in organizing laboratory training of WGS using both short read (Illumina) and long read technologies (MinIon) requiring knowledge and experience with both technologies including analysis of results in an AMR framework. Primary areas of responsibility:

  • Conduct evaluation of data from external quality assurance on WGS quality
  • Bioinformatics support to projects and surveillance data of genomes from single isolates
  • Organize data analyses and produce reports to summarize data
  • Support and assist in organizing training, including laboratory training in MinIon sequencing and analysis, and online bioinformatics
  • Dissemination of results in reports and scientific journals.
  • Other relevant tasks in connection to the grant

How to Apply?

Application Method: online_applicationRef. No. -

Application Procedure

Please submit your online application no later than 11 November 2022 (Danish time). Applications must be submitted as one PDF file containing all materials to be given consideration. To apply, please open the link "Apply online", fill out the online application form, and attach all your materials in English in one PDF file. The file must include:

  • Application (cover letter)
  • CV
  • Academic Diplomas (MSc)
All interested candidates irrespective of age, gender, race, disability, religion or ethnic background are encouraged to apply. Applications received after the deadline will not be considered.

Note or Other details

offer 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. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility. Salary and appointment terms The appointment will be based on the collective agreement with the Confederation of Professional Associations. The allowance will be agreed with the relevant union. The position is a project employment until 31 August 2024. Starting date is 1 January 2023 (or according to mutual agreement). You can read more about career paths at DTU here. If you are applying from abroad, you may find useful information on working in Denmark and at DTU at DTU – Moving to Denmark.

Contact Details

Additional information about the position can be acquired by contacting Professor Rene Hendriksen. Tel: 22 45 07 63, E-mail: [email protected]