Postdoc in Biological Data Systems, Alpha Cell Program

KTH Royal Institute of Technology; Stockholms kommun; On-site; SEK 379,157 - 541,653; Full time

Benefits offered by this job

Attractive benefits

Good working conditions

Opportunities for professional growth

Job summary

KTH Royal Institute of Technology is seeking a Postdoctoral researcher in Biological Data Systems to develop scalable data infrastructure and computational systems for large biological datasets as part of the Alpha Cell program.

This role involves establishing data foundations for modeling efforts, collaborating with the Human Protein Atlas team, and making biological data accessible for AI. The position is expected to last up to two years and offers great working conditions and benefits.

Qualifications

• Strong understanding of biological datasets relevant to cell biology.
• Rich experience using open databases and bioinformatic tools.
• Strong programming skills for developing computational tools.

Responsibilities

• Develop scalable data infrastructure for biological datasets.
• Work with interdisciplinary teams to enhance data accessibility.
• Integrate large biological datasets into standardized frameworks.

Skills

Bioinformatics knowledge

Programming skills (Python)

Communication skills

Collaboration skills

Education

Doctoral degree in a related field

Tools

Git/GitHub

AI-assisted coding tools

Job description

Postdoc in Biological Data Systems, Alpha Cell Program

KTH Royal Institute of Technology, School of Engineering Sciences in Chemistry, Biotechnology and Health

Alpha Cell is a new SciLifeLab program aimed at building the first molecular‑level computational model of the human cell. The program is led by Jan Ellenberg, Director of SciLifeLab, and Mathias Ulhen, Director of the Human Protein Atlas, together with a collaborative, multi‑institutional constellation of SciLifeLab researchers and infrastructure units.

Human Protein Atlas (HPA) is a large‑scale international effort to map the spatial distribution of proteins in human cells, tissues, and organs using antibody‐based imaging, transcriptomics, and systems biology approaches. Since its launch, the atlas has generated one of the world’s most comprehensive open resources for spatial molecular biology, comprising millions of images and extensive molecular measurements. All data are released openly and are widely used by researchers worldwide.

The Alpha Cell program is recruiting a postdoctoral researcher in Biological Data Systems to develop scalable data infrastructure and computational systems for large biological datasets. The position will be embedded within the Human Protein Atlas at KTH and SciLifeLab. The successful candidate will work closely with Avlant Nilsson cancer cell modeling lab and Wei Ouyang’s AICell lab who together will develop the first foundation cell model based on HPA and other external large‑scale datasets.

The role focuses on establishing the data foundations for the program’s initial modelling efforts by identifying, evaluating, integrating, and structuring large biological datasets into scalable, standardized, and AI‑ready frameworks for computational modelling. Working in SciLifeLab’s highly interdisciplinary environment, where imaging, molecular data, and computational methods are developed in parallel, the postdoc will develop systems and services that make biological data accessible to AI and computational tools, collaborating closely with the Human Protein Atlas (HPA) team and other researchers to enhance data integration, annotation, structure, and accessibility, connect external datasets, and support open science and emerging AI‑driven workflows.

Qualifications

Requirements

• A doctoral degree in bioinformatics, computational biology, cell biology with a strong computational component, or a closely related field. This eligibility requirement must be met no later than the time the employment decision is made.
• Strong understanding of biological datasets and data modalities relevant to cell biology, such as imaging, transcriptomics, proteomics, or spatial omics
• Rich experience and track record in using open databases and bioinformatic tools and services.
• Strong programming skills for developing computational tools or data workflows (Python or similar), with good software engineering practice, collaborative development experience (e.g. Git/GitHub), and ability to use AI‑assisted coding tools effectively.
• Strong communication and collaboration skills, with the ability to work across experimental, computational, and infrastructure‑focused teams

Preferred qualifications

• A doctoral degree or an equivalent foreign degree, obtained within the last three years prior to the application deadline
• Experience working with large heterogeneous datasets
• Experience working with biological datasets such as imaging, genomics, proteomics, or spatial omics
• Experience building scalable or automated data processing workflows
• Experience building APIs or data services for large scientific datasets
• Familiarity with the Model Context Protocol or similar systems for exposing data to AI tools and agents
• Experience developing infrastructure for machine learning workflows
• Experience contributing to open data platforms or large scientific databases
• Awareness of diversity and equal opportunity issues, with specific focus on gender equality

Great emphasis will be placed on personal skills.

Join us at KTH

KTH shapes the future through education, research and innovation. As a leading international technical university, we play an active role in advancing the transition towards a sustainable society. At KTH, you have the opportunity to grow and develop in a creative and dynamic environment, with good working conditions and attractive benefits. Equality, diversity and equal opportunities are essential to quality and form an integral part of KTH’s core values as a university and public authority.

About the employment

The position offered is for, at the most, two years.

It may be the case that a position at KTH is classified as a security‑sensitive role in accordance with the Protective Security Act (2018:585). If this applies to the specific position, a security clearance will be conducted for the applicant in accordance with the same law with the applicant's consent. In such cases, a prerequisite for employment is that the applicant is approved following the security clearance.

We firmly decline all contact with staffing and recruitment agencies and job ad salespersons.

Disclaimer: In case of discrepancy between the Swedish original and the English translation of the job announcement, the Swedish version takes precedence.