Publisher
source

University of Zurich

PhD Position in Host-Pathogen Transcript Profiling and Nanopore RNA Sequencing for Sepsis Diagnostics University of Zurich in Switzerland

Degree Level

PhD

Field of study

Microbiology

Funding

The post offers a dynamic, interdisciplinary research environment, training in wet-lab and bioinformatics techniques, access to high-performance computing resources, and the opportunity to work on cutting-edge diagnostic technologies. Specific details about stipend, tuition coverage, or funding type are not provided.

Deadline

Expired

Country flag

Country

Switzerland

University

University of Zurich

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Keywords

Microbiology
Biomedical Engineering
Biology
Computational Biology
Medical Science
Host-pathogen Interaction
Bioinformatic

About this position

The Institute of Medical Microbiology at the University of Zurich is offering a PhD position focused on profiling host and pathogen transcripts using Nanopore direct RNA sequencing for rapid sepsis diagnostics. The successful candidate will join Dr. Ashley Rooney's research group, which collaborates with Prof. Adrian Egli and partners in Switzerland and internationally. The project aims to develop, validate, and optimize a metatranscriptomic RNA sequencing-based diagnostic tool for sepsis, addressing the urgent need for rapid and accurate identification of bacterial infections in clinical settings.

Research activities will include optimizing sequencing workflows, bioinformatic analysis of host-pathogen interactions, and clinical validation studies. Key methods involve direct RNA sequencing from whole blood using nanopore technology, metatranscriptomic data analysis to identify pathogens and immune responses, and device development for portable diagnostics. The RADIANT-Dx consortium supports the project, aiming to deliver rapid results for treatment decisions and reduce unnecessary broad-spectrum antibiotic use.

Applicants should have a background in Molecular Microbiology, Computational Biology, or related fields, with experience in RNA sequencing, nanopore technology, and bioinformatics analysis considered advantageous. Strong analytical, problem-solving, communication, and organizational skills are required, along with motivation for translational medical research. The position offers interdisciplinary training, access to high-performance computing, and the chance to contribute to impactful clinical research.

To apply, candidates must send their CV and motivation letter to Dr. Ashley Rooney ([email protected]) and consult the UZH Microbiology and Immunology PhD program details at https://mim.ethz.ch. The application deadline is January 16, 2026.

Funding details

The post offers a dynamic, interdisciplinary research environment, training in wet-lab and bioinformatics techniques, access to high-performance computing resources, and the opportunity to work on cutting-edge diagnostic technologies. Specific details about stipend, tuition coverage, or funding type are not provided.

What's required

Applicants should have a background in Molecular Microbiology, Computational Biology, or a related field. Experience with RNA sequencing, nanopore sequencing technology, and bioinformatics analysis is advantageous but not mandatory. Strong problem-solving, analytical, writing, and communication skills are required, as well as the ability to work both independently and collaboratively in a multidisciplinary team. High attention to detail, organizational skills, and strong motivation to contribute to translational medical research are essential.

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Professors

Professor

University Name
Country flag

Switzerland

Research Interests

Microbiology

Pediatric Nursing

Antibiotic Resistance

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