Postdoctoral Researcher - Spatial Omics for Colorectal Cancer Risk Stratification 100%, Basel, fixed-term The Systems Physiology lab, led by Prof. Andreas Moor, at the Department of Biosystems Science and Engineering (D-BSSE) of ETH Zurich, located in Basel, is seeking a highly motivated and skilled Postdoctoral Researcher to join a collaborative project focused on uncovering novel prognostic biomarkers for Colorectal Cancer (CRC) using cutting-edge spatial omics technologies and digital pathology approaches. The project is co-led by Prof. Viktor Koelzer at the University Hospital Basel. Colorectal cancer remains a significant public health challenge, and accurately identifying Stage II CRC patients at high risk of recurrence is crucial for tailored treatment strategies. Current prognostic methods are insufficient, highlighting the need for more reliable biomarkers. This project aims to address this critical need by leveraging the power of spatial transcriptomics (ST) and high-plex immunofluorescence (IF) on a large cohort of archival CRC tissues. A key objective is to recapture prognostic markers in histological images through neuronal networks. Job description The successful candidate will play a central role in generating and analyzing spatial transcriptomics and image datasets of CRC, identifying novel prognostic biomarkers, and translating these findings into robust, interpretable models for risk stratification of CRC. Profile PhD in a relevant field such as Computational Biology, Bioinformatics, Cancer Biology, Molecular Biology, Pathology, or a closely related discipline. Strong background in spatial omics technologies (e.g., spatial transcriptomics, high-plex imaging), with hands-on experience in data generation and / or analysis. Proficiency in bioinformatics and computational data analysis, including experience with large-scale biological datasets. Solid understanding and practical experience with machine learning approaches for biomarker discovery and predictive modeling, specifically with hands-on experience in developing and applying neuronal networks (or comparable deep learning models) for image analysis. Demonstrated expertise in digital pathology concepts, including image processing, feature extraction from whole slide images, and working with large-scale histological datasets. Programming skills in languages such as R and/or Python. Experience with colorectal cancer research is an advantage. Ability to work independently and collaboratively in a fast-paced, interdisciplinary environment. Excellent communication, organizational, and problem-solving skills. Proven track record of scientific publications is an advantage. Workplace We offer The opportunity to work on a cutting-edge, clinically relevant project with a strong translational focus and the intersection of basic research and clinics. Access to state-of-the-art spatial omics, extensive archival patient cohorts and computational resources. A stimulating and collaborative research environment within ETH Zurich's D-BSSE in Basel and the Pathology Department of the University Hospital Basel. Competitive salary and benefits in accordance with ETH Zurich guidelines. Opportunities for professional development and scientific growth. chevron_right Working, teaching and research at ETH Zurich We value diversity In line with our values, ETH Zurich encourages an inclusive culture. We promote equality of opportunity, value diversity and nurture a working and learning environment in which the rights and dignity of all our staff and students are respected. Visit our Equal Opportunities and Diversity website to find out how we ensure a fair and open environment that allows everyone to grow and flourish. Curious? So are we. We look forward to receiving your online application with the following documents: Cover letter (Which of your research projects was most exciting to you so far and why? Why would you like to join us?) CV relevant certificates Names of 3 references Please note that we exclusively accept applications submitted through our online application portal. Applications via email or postal services will not be considered. Further information about the laboratory, can be found on our website. For more information about the position, contact Prof. Andreas Moor (andreas.moor@bsse.ethz.ch) (no applications). About ETH Zürich ETH Zurich is one of the world’s leading universities specialising in science and technology. We are renowned for our excellent education, cutting-edge fundamental research and direct transfer of new knowledge into society. Over 30,000 people from more than 120 countries find our university to be a place that promotes independent thinking and an environment that inspires excellence. Located in the heart of Europe, yet forging connections all over the world, we work together to develop solutions for the global challenges of today and tomorrow. If you apply for this position please say you saw it on Bioloxy

Postdoctoral Researcher - Spatial Omics for Colorectal Cancer Risk Stratification

100%, Basel, fixed-term

The Systems Physiology lab, led by Prof. Andreas Moor, at the Department of Biosystems Science and Engineering (D-BSSE) of ETH Zurich, located in Basel, is seeking a highly motivated and skilled Postdoctoral Researcher to join a collaborative project focused on uncovering novel prognostic biomarkers for Colorectal Cancer (CRC) using cutting-edge spatial omics technologies and digital pathology approaches. The project is co-led by Prof. Viktor Koelzer at the University Hospital Basel.

Colorectal cancer remains a significant public health challenge, and accurately identifying Stage II CRC patients at high risk of recurrence is crucial for tailored treatment strategies. Current prognostic methods are insufficient, highlighting the need for more reliable biomarkers. This project aims to address this critical need by leveraging the power of spatial transcriptomics (ST) and high-plex immunofluorescence (IF) on a large cohort of archival CRC tissues. A key objective is to recapture prognostic markers in histological images through neuronal networks.

Job description

The successful candidate will play a central role in generating and analyzing spatial transcriptomics and image datasets of CRC, identifying novel prognostic biomarkers, and translating these findings into robust, interpretable models for risk stratification of CRC.

Profile

PhD in a relevant field such as Computational Biology, Bioinformatics, Cancer Biology, Molecular Biology, Pathology, or a closely related discipline.
Strong background in spatial omics technologies (e.g., spatial transcriptomics, high-plex imaging), with hands-on experience in data generation and / or analysis.
Proficiency in bioinformatics and computational data analysis, including experience with large-scale biological datasets.
Solid understanding and practical experience with machine learning approaches for biomarker discovery and predictive modeling, specifically with hands-on experience in developing and applying neuronal networks (or comparable deep learning models) for image analysis.
Demonstrated expertise in digital pathology concepts, including image processing, feature extraction from whole slide images, and working with large-scale histological datasets.
Programming skills in languages such as R and/or Python.
Experience with colorectal cancer research is an advantage.
Ability to work independently and collaboratively in a fast-paced, interdisciplinary environment.
Excellent communication, organizational, and problem-solving skills.
Proven track record of scientific publications is an advantage.

Workplace

We offer

The opportunity to work on a cutting-edge, clinically relevant project with a strong translational focus and the intersection of basic research and clinics.
Access to state-of-the-art spatial omics, extensive archival patient cohorts and computational resources.
A stimulating and collaborative research environment within ETH Zurich's D-BSSE in Basel and the Pathology Department of the University Hospital Basel.
Competitive salary and benefits in accordance with ETH Zurich guidelines.
Opportunities for professional development and scientific growth.

chevron_right Working, teaching and research at ETH Zurich

We value diversity

In line with our values, ETH Zurich encourages an inclusive culture. We promote equality of opportunity, value diversity and nurture a working and learning environment in which the rights and dignity of all our staff and students are respected. Visit our Equal Opportunities and Diversity website to find out how we ensure a fair and open environment that allows everyone to grow and flourish.

Curious? So are we.

We look forward to receiving your online application with the following documents:

Cover letter (Which of your research projects was most exciting to you so far and why? Why would you like to join us?)
CV
relevant certificates
Names of 3 references

Please note that we exclusively accept applications submitted through our online application portal. Applications via email or postal services will not be considered.

Further information about the laboratory, can be found on our website. For more information about the position, contact Prof. Andreas Moor (andreas.moor@bsse.ethz.ch) (no applications).

About ETH Zürich

ETH Zurich is one of the world’s leading universities specialising in science and technology. We are renowned for our excellent education, cutting-edge fundamental research and direct transfer of new knowledge into society. Over 30,000 people from more than 120 countries find our university to be a place that promotes independent thinking and an environment that inspires excellence. Located in the heart of Europe, yet forging connections all over the world, we work together to develop solutions for the global challenges of today and tomorrow.

If you apply for this position please say you saw it on Bioloxy

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