Computational proteomics and signaling
We model proteomic, phosphoproteomic, cytokine, and secretome data to infer pathway activity, regulatory structure, and disease-relevant molecular states.
BioSysLab
National Technical University of Athens
Biomedical Systems Laboratory
Engineering, computation, and molecular measurement for translational biology and medicine.
BioSysLab develops measurement and computational frameworks for translational biology. The lab's core expertise is mathematical, computational, and data-driven modeling, integrating molecular measurements and clinical context with biomedical questions in cancer, chronic disease, drug response, and precision health.
20+
years in multiplex assays, proteomics, and systems biology
100+
alumni trainees across postdoc, PhD, MS/Diploma, and undergraduate levels
NTUA
Biomedical systems, computation, and engineering
Research
Research directions
We study biological systems through mathematical models, machine learning & AI, network biology, and computational analysis of high-dimensional biomedical data. Wet-lab access and experimental/clinical collaborators support.
Biomarker modeling and translation
We combine plasma proteins, liquid-biopsy signals, clinical variables, and causal evidence into interpretable models for early detection, monitoring, and stratification.
AI for translational biology
We develop interpretable and generative models of disease trajectories, tumor resistance, drug response, and adaptive biomedical decision-making.
Mathematical dynamics and observability
We use dynamical and stochastic models, optimal transport, and observability theory to study disease progression and what tissue and blood measurements can reveal about hidden biological states.
People
Current members
Leonidas G. Alexopoulos
Professor, National Technical University of Athens
Prof. Alexopoulos leads BioSysLab at NTUA. He works at the interface of engineering, computation, proteomics, and medicine, with more than two decades of experience in multiplex assays and systems biology.
He has trained at Duke, MIT, and Harvard, co-founded the biotech spin-off Protavio, and co-founded the NTUA Master's program in Translational Engineering in Health and Medicine.
Nikolaos Meimetis
Research Associate
(June 08, 2026-present)
Nikolaos develops mathematical and AI methods to study how biological states change with disease and treatment. His interests span machine and deep learning, network biology, omics translation, disease trajectories, cross-compartment observability, and translational oncology, including tumor progression and treatment resistance.
He earned his PhD in Biological Engineering at MIT, followed by a postdoctoral appointment there, after training in Mechanical Engineering at NTUA.
Kyriaki Velentza
Mechanical Engineering Student / Undergraduate Researcher
Kyriaki is a final year Mechanical Engineering student at NTUA, pursuing her Integrated Master's degree. With a keen interest in biomedical systems, she joined BioSysLab to learn more about computational systems biology.
Her research mainly focuses on computational systems modelling in colon cancer progression.
Anelajda Korcari
Chemical Engineering Student / Undergraduate Researcher
Anelajda (Lada) is beginning her fourth year in Chemical Engineering at NTUA. Her planned research asks which tumor signaling programs can be detected through blood proteins, using computational analysis of tissue and plasma measurements.
She will study how protein secretion, tissue specificity, and circulating abundance shape the signals that reach the blood.
Polychronis Dellis
Laboratory Manager
Polychronis supports BioSysLab's laboratory operations and research infrastructure. He has academic experience as a Scientific Associate / Assistant Professor at TEI of Athens and is currently affiliated with the School of Pedagogical and Technological Education.
PhD & Post-doc alumni Former PhD students and postdoctoral researchers at BioSysLab
- Asier Antoranz PhD student
- Jan Rozanc Research staff / postdoctoral alumnus
- Theodore Sakellaropoulos PhD student
- Dimitris Messinis PhD student
- Dimitrios Tzeranis Postdoctoral researcher
- Michael Neidlin Postdoctoral researcher
- Danae Zareifi PhD student
- Exarchos Kanelis PhD student
- Christos Fotis PhD student
- Dionysia Skea PhD student
- Alexia Gali PhD student
- Ioannis N. Melas PhD student
- George Kanakaris PhD student
Publications
Selected publications
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FlowTransOP: Distributional Translation of Omics Signatures via Constrained Deep Flow Matching.
Meimetis, Magliacane, Hoang, Lauffenburger. bioRxiv, 2026.
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Systems biology framework for the rational design of operational conditions for in vitro/in vivo translation of tissue models.
Cadavid, Meimetis, et al. Science Advances, 2026.
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Secretome and Pathway Analysis of Stress Induced Disc Degeneration In Vitro.
Kanelis, Nuesch, Snuggs, Le Maitre, Alexopoulos. JOR Spine, 2026.
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Protein kinase D drives the secretion of invasion mediators in triple-negative breast cancer cell lines.
Gali et al. iScience, 2024.
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Inference of drug off-target effects on cellular signaling using interactome-based deep learning.
Meimetis, Lauffenburger, Nilsson. iScience, 2024.
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Conserved transcriptomic signatures and protein markers in cellular senescence models.
Skea et al. Research Square preprint, 2023.
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AutoTransOP: translating omics signatures without orthologue requirements using deep learning.
Meimetis et al. npj Systems Biology and Applications, 2024.
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Predicting single cell genotypes from single cell expression profiles in AML using deep learning.
Proceedings of the 16th International Joint Conference on Biomedical Engineering Systems and Technologies, 2023.
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A network-based computational and experimental framework for repurposing compounds toward the treatment of non-alcoholic fatty liver disease.
Zareifi, Chaliotis, Chala, Meimetis et al. iScience, 2022.
Courses
Teaching
Teaching connects computation, biological engineering, biomedical technology, and design for health applications.
Introduction to Biological Engineering
Also available in English for Erasmus students.
Biomedical Systems Design / Biodesign
Also available in English for Erasmus students.
Biomechanics / Biomedical Technology
Also available in English for Erasmus students.
Vacancies
Open positions
Open calls and informal inquiries will be posted here.
We welcome prospective students or collaborators with a strong fit in systems biology, computational biology, proteomics, or biomedical engineering to contact the lab with a concise research interest note and CV.
Contact
Find BioSysLab
BioSysLab is located at the National Technical University of Athens, Zografou campus.
Office
Department of Mechanical EngineeringBuilding E, Room 320
National Technical University of Athens
Heroon Polytechniou 9
15780 Zografou, Greece
Tel: +30 210 7721666
Email: leo@mail.ntua.gr
Laboratory
Department of Mechanical EngineeringBuilding M
Biomedical Systems Laboratory
National Technical University of Athens
Heroon Polytechniou 9
15780 Zografou, Greece
Tel: +30 210 7721516