Bioinformatician in single-cell immune transcriptomics and epigenomics

Do you want to contribute to top quality medical research?

We are looking for an ambitious bioinformatician with solid genome-wide bioinformatics/computational biology skills to join our highly accomplished team of immunologists in an European Research Council (ERC)-funded project (RESIDE). We offer a stimulating environment in a rapidly moving research frontier. The successful candidate will be part of a cluster of other bioinformaticians working on similar topics.

Your mission

The Björkström group hosting this position studies development, regulation and function of human innate lymphoid cells (ILCs), including natural killer cells, and how these cells contribute to pathology and normal homeostasis in organs such as liver and uterus. The studies are translational as they involve advanced basic molecular and cellular immunological investigations of precious human tissue samples to discover novel disease mechanisms and therapy targets. The Björkström group consists of 3 PhD students and 4 postdocs and has a strong track-record working on human NK cells in tissues (Sci Immunol 2021, 2020, Sci Trans Med 2021 x2). The group works closely together with clinical partners at several Swedish hospitals and laboratory facilities at Science for Life Laboratories (SciLifeLab), Karolinska Institutet and abroad. The bioinformatician will work in close collaboration with all members of the team to continue the successful line of investigations utilizing single-cell RNA sequencing (scRNA-seq) and ATAC-seq to dissect human ILC biology in health and disease.

The bioinformatician will be a part of the Center for Infectious Medicine (CIM), Karolinska Institutet, which is a nationally leading and internationally competitive center for human translational immunology and infectious diseases research. The center consists of approximately 25 graduate students and 20 postdocs organized around 17 independent research groups. Importantly, the bioinformatician will also be part of a newly formed Center for Bioinformatics and Biostatistics (CBB) at the Karolinska Flemingsberg Campus which aims at creating a cutting-edge world-leading bioinformatic hub. This latter center will also offer mentoring and career-development support.

We are seeking one bioinformatician that will work as an integrated bioinformatician in our team, being involved in several ongoing projects. We already have large sets of high-throughput sequencing data including scRNA-seq (SMARTseq2 and 10X genomics) and ATAC-seq data as well as multicolor flow cytometry data of human ILCs, which will be analyzed in close collaboration with other team members and other bioinformaticians at SciLifeLab and CBB. Hence, excellent communication skills and fluency in English is essential.

Your profile

The sucessful candidate must:

hold a PhD in the field of bioinformatics/computational biology, or a related field.
Fully master R and Python (be proficient in Python Data Stack tools such as NymPY, SciPY, Pandas, scikit) and have solid Unix/Linux experience and statistical knowledge.
Have experience in genome-wide NGS data and in particular in working with scRNA-seq/scATAC-seq from FASTQ to analyzed data, both with 10X, SS2 and other formats.

Fluency in English is a requirement.

It is meritious if the candidate has:

Ability to formalize biological questions into computational models in order to consult and advise on experimental design before data generation is another merit.
Knowledge of Perl/C/Matlab/SQL is a plus. Experience working in version-controlled systems in a merit. Experience with high-performance computing for analysis is another merit.

The successful candidate should be self-motivated, have good communications skills and a proven ability to interact effectively and work productively in an interdiciplinary team.We place great emphasis on personal suitability in this recruitment process.

What do we offer?

A creative and inspiring environment with wide-ranging expertise and interests. Karolinska Institutet is one of the world's leading medical universities. Our vision is to pursue the development of knowledge about life and to promote a better health for all. At Karolinska Institutet, we conduct successful medical research and hold the largest range of medical education in Sweden. Karolinska Institutet is also a state university, which entitles you to several good benefits through our collective agreement. And you get to practice freely in our modern wellness facilities, where trained staff are on site.

Location: Flemingsberg

Choose to work at KI – Ten reasons why

Application

Welcome to apply at the latest 2024-02-29

The application is to be submitted through the Varbi recruitment system.In this recruitment, you will apply with your CV without a personal letter. Instead, you will answer some questions about why you are applying for the job in the application form.

Permanent position is initiated by a six months trial period.

Want to make a difference? Join us and contribute to better health for all