VIB Center for AI & Computational Biology Centers At VIB
Postdoc Position: Deep Learning for Glioblastoma Sequence-to-Function Models
VIB Center for AI & Computational Biology Leuven Post-doctoral
VIB.AI, the VIB Center for AI & Computational Biology, is a young research center dedicated to combining machine learning with in-depth knowledge of biological processes. Our mission is to study fundamental problems in biology and work towards foundation models of biological systems and innovative AI-driven biotech applications.
The Laboratory of Computational Biology in Leuven (www.aertslab.org), led by VIB.AI Scientific Director Stein Aerts, is seeking a talented postdoctoral researcher to develop next-generation sequence-to-function models for glioblastoma (GBM). Glioblastoma is the most aggressive form of brain cancer, characterized by diverse and dynamic cell states that drive treatment resistance and poor prognosis.
In this project, funded by the Foundation Against Cancer, you will move beyond descriptive genomics to decipher the underlying regulatory logic of GBM. By leveraging single-cell multi-omics (scATAC-seq, scRNA-seq) and spatial omics, you will map enhancer landscapes at unprecedented resolution. The core innovation of your work will be integrating this data to train deep learning models that predict chromatin accessibility and gene expression patterns. These models will ultimately be used to design synthetic enhancers tailored to modulate specific GBM cell states, offering a path toward highly targeted oncolytic virus therapies and immunomodulatory interventions.
Responsibilities
* Model Development: Build and train advanced deep learning architectures (e.g., CNNs, Transformers, Generative Models) to decode the regulatory logic of genomic enhancers in GBM and the tumor microenvironment.
* Synthetic Design: Use sequence-to-function models to design "programmable" synthetic enhancers capable of targeting specific cancer cell states or host cells.
* Data Integration: Integrate pan-cancer single-cell atlases with spatial transcriptomics to understand signaling pathways and gene-regulatory dynamics.
* Explainable AI (XAI): Ensure models provide mechanistic insights into cancer cell states, moving from "black box" predictions to biological understanding.
* Collaboration: Work within a multi-disciplinary team and potentially engage with collaborators across Belgian universities.
Profile
* Education: PhD in Artificial Intelligence, Bioinformatics, Computer Science, Physics, Engineering, or a related field.
* Programming: Proficient in Python.
* Machine Learning: Strong experience with frameworks like TensorFlow, Keras, or PyTorch.
* Preferred Skills:
o Experience with Explainable AI (e.g., SHAP, Integrated Gradients).
o Familiarity with high-performance computing (HPC) and software containers.
o Knowledge of cancer genomics or regulatory biology is a plus.
* Mindset: Ability to work independently while thriving in a collaborative, international team.
We offer
* Cutting-Edge Resources: Access to state-of-the-art compute and GPU infrastructure, including H100 and B300 GPU clusters.
* Innovation: The opportunity to apply a recently published, "proof-of-concept" method for synthetic enhancer design to a critical, real-world clinical challenge.
* Environment: A stimulating, international research setting in a top-tier university.
* Funding: Minimum of 3 years of funding available; candidates are encouraged to apply for prestigious fellowships (EMBO, MSCA, etc.).
* Start Date: As soon as possible.
How to apply?
Please complete the online application procedure via the VIB website and include:
* A detailed CV
* A motivation letter specifically detailing your interest in glioblastoma and deep learning
For more information: stein.aerts@kuleuven.be
VIB-VUB Center for Structural Biology Brussels
VIB.AI is a brand new research center. Its core mission? To study fundamental problems in biology by combining machine learning with in-depth knowledge of biological processes. We are looking for junior and senior group leaders to help shape our research agenda.
Examples of research topics include, but are not limited to: development of new AI architectures for biology and hybrid models that combine deep learning with mechanistic models; foundation models of genome regulation using single-cell and spatial multi-omics data; AI-based modeling of protein structure and protein interaction networks; AI-based modeling of cell morphology and tissue function using imaging and computer vision; AI models of disease and digital twin applications.
An innovative region at the heart of Europe
Leuven and Ghent are based in Flanders, one of the top research destinations in Europe. VIB.AI is part of the VIB Life Sciences Institute (with colleagues working in cancer, biotechnology, immunology, plants, microbiology amongst others) and an extensive set of core facilities. VIB.AI is embedded within the University of Leuven, the largest university in Belgium and Europe’s most innovative university. KU Leuven is also home to the Leuven AI Institute and the Leuven University Hospital, one of the largest in Europe. Leuven is also home to Imec, a world-renowned research center for nanoelectronics and digital technology.
Leuven is an attractive university city with a rich history and a lively atmosphere. It offers an affordable, high standard of living, has an international school, and ample daycare options. The public education system and public health care system in Flanders are world-class, easily accessible, and low-cost to end users. Public transport is also excellent and widely available.
Brussels, the capital of Europe, is only 20 mins away. Leuven is also only 14 minutes by train from Brussels Airport which has many daily direct flights to North America, Africa and Asia. There are also high-speed direct international rail connections to numerous cities including Paris, London, Frankfurt and Amsterdam.
Ghent offers an exceptional quality of life and seamlessly blends historical charm with modern convenience. With its picturesque canals, centuries-old architecture, and vibrant cultural scene, Ghent provides a unique and inspiring backdrop for both work and leisure.
Its world-class educational institutions and research centers contribute to a dynamic professional landscape.
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