Computational Staff Scientist - shared between 2 labs - in spatial and single cell omics

Karolinska Institutet; Solna kommun; On-site; SEK 781,000 - 1,004,000; Full time

Benefits offered by this job

Collective agreement benefits

Wellness facilities access

Job summary

Karolinska Institutet invites applications for a Computational Staff Scientist position shared between two labs. You will analyze spatial transcriptomics data (Xenium/Visium) and sc-omics data, integrate datasets, and help shape a collaborative research environment.

Fluency in English and strong communication are essential. The role emphasizes data management, pipeline development, and mentoring students, within a multidisciplinary laboratory at KI in Solna.

Qualifications

• Doctoral degree in Computational Biology, Bioinformatics, or related field.
• Curious, motivated scientist with good communication and organizational skills.
• Experience with scripting and data analysis tools (R, Python).

Responsibilities

• Analyze spatial transcriptomics data (Xenium, Visium) and sc-omics data (RNA, ATAC, CUT&Tag).
• Integrate datasets and interpret results.
• Maintain documentation and analytical workflows.
• Manage computational pipelines and infrastructure.
• Mentor students in data analysis.

Skills

Computational Biology

Data analysis

English communication

Education

PhD in Computational Biology/Bioinformatics or related field

Tools

R

Python

GitHub

Nextflow

Xenium/Visium analysis

Job description

Computational Staff Scientist - shared between 2 labs - in spatial and single cell omics

Do you want to contribute to top quality medical research?

Come and join the Andersson & Kragesteen labs at the department of Medical Biochemistry and Biophysics (MBB) at Karolinska Institutet/Biomedicum and decipher the molecular logic of Organ development and Oxygen Homeostasis that is central to human health - with world-class facilities, passionate biomedical scientists, a buzzing capital, and scenic nature at your doorstep.

The vision of the Andersson-Rolf group is to translate knowledge from development to promote regeneration and prevent disease in adulthood. We integrate human foetal and adult pancreas and stomach organoid technology with (spatial) omics, genome- and bioengineering. We aim to understand the ‘blueprint’ of development from studying complex primary tissue, and to use this knowledge to deconstruct and reconstruct it in vitro.

The Kragesteen group overarching goal is to uncover the genetic basis of oxygen homeostasis. The lab uses mouse hypoxia models, human foetal tissues, and kidney organoids to map and manipulate oxygen-sensing circuitry with a focus on erythropoiesis regulation and human evolutionary adaptation to high altitude hypoxia.

Your mission

We are looking for highly motivated and enthusiastic candidate with a strong interest in biological questions surrounding development and genome regulation, and experience in computational analysis of spatial transcriptomics and single cell omics data and data integration. The applicant will work in close collaboration with the two PIs, PhD students, and other researchers to help shape a well-functioning collaborative laboratory environment with a focus on data management and analysis.

Main responsibilities include:

• Processing and analysis of spatial transcriptomics data (Xenium (5k) and HD Visium)
• Processing and analysis of sc-omic data (RNA, ATAC, CUT&Tag/Run, ..)
• Data integration and interpretation
• Careful documentation and setting up analytical workflows.
• Take charge of computational infrastructure, pipelines, etc.
• Mentoring students in the lab in analysing their own data

Your profile

We welcome applications from candidates with a doctoral degree in Computational Biology, Bioinformatics, or other related fields. The successful candidate is a curious, motivated, energetic, responsible scientist with good communication and organizational skills, who enjoys working with people, mentoring students, and take pride in delivering work of good quality.

The work requires:

• Documented Expertise in Computational Biology and data analysis (eg. using R and Python)
• Good organization of scripts and workflows (e.g., GitHub, Nextflow)
• Motivated to evaluate and implement the latest tools
• Experienced in analysis of spatial-transcriptomics data (Xenium, Visium, other) and data integration (sc-omics)
• Experienced in analysis of sc-omics data
• Curious about the biology and scientific questions of the labs
• Experience with server maintenance is a merit
• Proficiency in English and excellent communication skills.

Merits (not required, but advantageous):

• Experience in AI algorithms, and machine learning
• Experience in Spatial proteomics
• Experience in splicing analysis

The applicant must be able to integrate well into the international and multidisciplinary environment. Personal suitability is therefore of great importance.

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.

KI applies individual and differentiated salary setting in accordance with our collective agreements RALS and RALS-T.

An employment application must contain the following documents in English:

• A complete curriculum vitae, including date of the thesis defense, title of the thesis, previous academic positions, academic title, current position, academic distinctions, and committee work
• A complete list of publications
• A summary of current work (no more than one page)
• A short motivation letter (in English and no more than one page)

Welcome to apply at the latest September 15th, 2026

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

Type of employment

Type of employment Temporary position

Contract type

Contract type Full time

First day of employment

First day of employment Upon agreement

Salary

Salary Monthly salary

Number of positions

Number of positions 1

Full-time equivalent

Full-time equivalent 100 %

City

City Solna

County

Country

Country Sweden

Reference number

Contact

Union representative