Uppsala University, Department of Medical Sciences

Bioinformatician, temporary position, NGI Uppsala, SNP&SEQ

The Department of Medical Sciences (IMV) is a large clinical institution with approximately 250 employees and over 900 individuals affiliated via the University Hospital. The department has a broad research profile with strong research groups in various areas. Research is closely linked to the clinical activities at the University Hospital and includes both fundamental studies on disease etiology and the development and evaluation of improved diagnostics and new treatment methods. More information about the department's activities can be found at www.medsci.uu.se

The SNP&SEQ Technology Platform at IMV, is part of the National Genomics Infrastructure (NGI) at SciLifeLab in Uppsala. We offer large-scale services in sequencing (NGS), SNP genotyping, and proteomics to Swedish academia, industry, as well as to international users. The operation consists of a multidisciplinary team of researchers, project coordinators, research engineers, bioinformaticians, system developers, and system administrators. Annually, we analyze more than 50,000 samples and generate over 350 Terabases of data. Data is handled and analyzed on a dedicated cluster designed for handling sensitive data. The cluster (Miarka) is located at UPPMAX, and in addition local servers are also utilized. More information about SNP&SEQ's activities can be found at: https://www.uu.se/forskning/snpseq           

SNP&SEQ always strives to deliver data of the highest quality, certified according to the European quality standard ISO/IEC 17025, and accredited by SWEDAC as a testing laboratory.

If you have a strong background in bioinformatics, experience working with sequencing data, and a desire to be part of a dynamic and forward-thinking team, we welcome your application. We are looking for an experienced bioinformatician to work on developing, maintaining, and applying both existing and future tools for bioinformatic analysis in our operations.

Your responsibilities will include but not be limited to:

  • Developing and implementing data tools and workflows for bioinformatic analyses.
  • Analyzing data from internal validations of new laboratory methods, bioinformatic tools, and inter-laboratory comparisons, as well as participating in writing reports based on the results.
  • Participating in project planning meetings with users and contributing expertise on bioinformatics issues.
  • Quality control and bioinformatic analyses of sequence and genotype data in service projects.
  • Collaboration with UPPMAX, other SciLifeLab activities, and other entities with similar operations.


  • University degree in bioinformatics, molecular biology, genetics or related field.
  • At least two years documented work experience in bioinformatics.
  • Good knowledge of bioinformatics in genomics and large-scale sequencing (NGS).
  • Good programming skills in Python or similar programming languages.
  • Proficiency in working in a Linux environment and in HPC systems.
  • Experience using Git.
  • Ability to handle and prioritize tasks effectively.
  • Ability to independently identify and solve problems during data analysis.
  • Very good English language skills, both spoken and written.

We are looking for a person who is outgoing, proactive, responsible, detail-oriented, and comfortable working both independently and in a team. Great emphasis will be placed on personal qualities such as a positive attitude towards service activities and good collaborative skills.

Additional qualifications
In addition to the qualifications listed above, we appreciate previous experience in one or more of the following areas:

  • PhD in genomics, genetics, or a similar area, including bioinformatics work.
  • Experience using Nextflow.
  • Experience working in a research-oriented service facility.
  • Good understanding of how pre-analytical and laboratory methods may affect data quality.
  • Quality control and analysis of large-scale genotyping data.
  • Experience working in an accredited environment (or equivalent regulation).
  • Good understanding of information security and GDPR.
  • Good Swedish language skills, both spoken and written.

About the employment
The employment is a temporary position, 12 months. Scope of employment 100 %. Starting date as agreed. Placement: Uppsala

For further information about the position, please contact: Kristina Larsson, head of Data Operations, kristina.larsson@medsci.uu.se, Ulrika Liljedahl, head of unit SNP&SEQ, ulrika.liljedahl@medsci.uu.se

In this recruitment we have replaced the cover letter with questions that you are asked to answer when making your application. The answers will be used as a part of the selection process.

Please submit your application by 17 June 2024, UFV-PA 2024/2054.

Are you considering moving to Sweden to work at Uppsala University? Find out more about what it´s like to work and live in Sweden.

Type of employment Temporary position
Employment expires 2025-07-31
Contract type Full time
First day of employment 2024-08-01
Salary Individual salary
Number of positions 1
Full-time equivalent 100%
City Uppsala
County Uppsala län
Country Sweden
Reference number UFV-PA 2024/2054
Union representative
  • Seko Universitetsklubben, seko@uadm.uu.se
  • ST/TCO, tco@fackorg.uu.se
  • Saco-rådet, saco@uadm.uu.se
Published 03.Jun.2024
Last application date 17.Jun.2024 11:59 PM CEST

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