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Z. Faidon Brotzakis (PI)
2026-now: Assistant Professor @ Department of Biotechnology, Agricultural University of Athens, GR
Academic profile:
2023-2025: Senior post-doctoral fellow @ Institute for Bioinovation, BSRC Al. Fleming GR (Skretas Group) & visiting post-doc University of Cambridge UK (Vendruscolo group)
2022-2023 (Sept-Oct):Bodossakis post-doc fellow: Dept. Chem., University of Cambridge UK & Institute for Bioinovation, BSRC Al. Fleming GR
2019-2022: FEBS post-doc fellow, Computational Biology/Biophysics, Dept of Chem, University of Cambridge (UK), Prof. M. Vendruscolo
2017-2018: Post-doc, Computational Biology/Biophysics, Dept. of Chem. & Applied Biosciences, ETHz & USI (CH), Prof. M. Parrinello.
2012-2016: PhD, Computational Biology/Biophysics, HIMS, UvA (NL), Prof. P. G. Bolhuis
2006-2012: Undergrad studies, Chemical Engineering School, NTUA (GR), diploma thesis with Prof. D. N. Theodorou, Dr. G. Boulougouris
Conferences
2025 69th Protein structure prediction and design in biology and pharmacology" Benzon symposium in Copenhagen (DK), invited speaker
2025 Recent Advances in Rare Event modelling (RARE2025), invited speaker
2024 5th International Conference on Materials Science & Nanotechnology (Future Materials-2024), invited speaker
2024 7th Conference of Young Scientists Hellenic Pasteur Institute, speaker
2024 Twin4Promis training workshop, NHRF, Athens, Greece, invited speaker, co-organiser
2024 Twin2Pipsa & Twin4Promis Twinned Training Schools, U. Cambridge, UK, invited speaker
2023 Annual Hellenic Society of Biochemistry and Molecular Biology (Athens, GR), invited speaker
2023 Hbio. 3rd Hellenic Biocluster Forum. (Athens GR).
2022 Annual Hellenic Society of Biochemistry and Molecular Biology (Patras, GR), invited speaker
2022 20 years of Metadynamics- Cecam Workshop, Lausanne, CH, invited speaker.
2022 FEBS fellows meeting, Vimeiro, Portugal invited speaker.
2022 Lost in Integration - Probing Biomolecules with Electrons, Photons, Neutrons and Magnetic Spins, Spetses, Greece.
2021 Centre of Misfolding Disease annual conference, Centre of Misfolding Disease, University of Cambridge , Cambridge, UK, poster presentation.
2021 ECR webinar series, Biochemistry focus, Computational biology and bioinformatics, Biochemical society, invited speaker
2021 Computer Simulation and Theory of Macromolecules, Hunfeld, Germany, oral presentation.
2021 18th Hellenic Symposium on Medicinal Chemistry, oral presentation
2021 7th Annual meeting of the Centre of Misfolding Diseases, CMD, Cambridge UK, oral presentation.
2021 Hellenic polymer society international conference, Athens, Greece, poster presentation.
2019 Showcase week Theory symposium, Department of Chemistry, University Cambridge, Cambridge UK, chair.
2019 6th Annual meeting of the Centre of Misfolding Diseases, CMD, Cambridge UK, oral presentation.
2019 Advanced Simulations for Biomolecular Research, BioExcel 2nd SIG Meeting, Athens, Greece, poster presentation.
2017 Structure Based Drug Discovery, Lausanne, Switzerland, poster presentation.
2016 Nanocity 2016, the national event on nanotechnology, Amsterdam, Netherlands poster presentation.
2016 Computer Simulations, Gordon Conference, Girona, Spain poster presentation.
2015 CHAINS, the Dutch chemistry conference, Veldhoven, Netherlands, oral presentation.
2015 Nanocity 2015, the national event on nanotechnology, Amersfoort, Netherlands poster presentation.
2015 Dutch Biophysics conference, Veldhoven, Netherlands, poster presentation.
2014 Physics@FOM, physics conference, Veldhoven, Netherlands, poster presentation.
Courses/Workshops/Teaching
2025 "Designing Kinetics: from Modeling to Optimization and back again" Lorentz Center workshop, Leiden (NL), invited speaker
2025 Co-supervising 3 Msc students in the context to the Biotechnology masters, Biology department, NKUA, Greece.
2025 Teaching "Organic Chemistry in Biomedical sciences" (spring semester) at the University of Westa Attica, Greece.
2025 Teaching lectures on in-silico protein design of "Protein and enzymatic biotechnology" course of the Biotechnology masters, Biology department, NKUA (winter semester), Greece.
2024 Boost4bio summer school “Bioinnovation and entrepreneurship”, BSRC Fleming, Vari, Greece, co-organiser.
2024 Teaching lectures on in-silico protein design of "Protein and enzymatic biotechnilogy" course of the Biotechnology masters, Biology department, NKUA (winter semester), Greece.
2022 Lost in Integration - Probing Biomolecules with Electrons, Photons, Neutrons and Magnetic Spins, Spetses, Greece.
2021 Centre of Misfolding Disease annual meeting, Cambridge, UK.
2021 Accelerating the Understanding of Rare Events, Leiden, Netherlands.
2021 EMBO Virtual Workshop on Advances and challenges in biomolecular simulations.
2018 Colloid Assembly Engineering, Riva del Garda, Italy.
2018 Multiscale simulations of allosteric regulatory mechanisms in cancer-associated proteins and signaling protein networks, CECAM workshop, Lugano, Switzerland.
2015 From trajectories to reaction coordinates: making sense of molecular simulation data, Vienna, Austria.
2015 Writing Scientific Proposals and Survival Guide for Peer Review workshop, Leiden, Netherlands.
2014 Computer simulation and theory of macromolecules workshop, Hunfeld, Germany.
2013 Risk analysis and technology assessment course, NanonextNL course, Netherlands.
2013 Computational structural biology course, Amsterdam, Netherlands.
2013 Biomolecular Simulations course, Amsterdam, Netherlands.
2013 Molecular Simulations workshop (MolSim), poster presentation, Amsterdam, Netherlands.
2013 Methods in molecular simulations (CCP5) summer school, poster presentation, Manchester, UK.
2012 Scientific programming in python course, Amsterdam, Netherlands.
Grants-Awards-Honours
Computational Grant, PI of the Amazon AWS resources, GRNET call (ID: Cryo-EM Modelling), equivalent budget of $347k. (2025)
Computational Grant, PI of the Amazon AWS resources, GRNET call (ID: ResQPMDs), equivalent budget of $45k. (2024)
Research Grant, Co-PI in the FEBS Excellence Award of Dr. Pierre Santucci (PI) (100k euro) "Molecular investigation of pyrazinamide action and resistance against tuberculous and environmental mycobacteria (MoNPyRATE)". (2024)
Award, Academy of Athens Award "Chemistry Pioneering Research Article, G. Fotinos" (2023)
Scholarship, Bodossakis post-doc fellowship (2022-2023).
Scholarship, FEBS individual-post doc fellowship (2019-2022).
Scholarship, 3month visiting post-doc fellowship HPC Europa-3 (2019).
Award, Poster Award: Hellenic polymer society international conference, Athens, Greece (2021).
Award, Travel Grant: Advanced Simulations for Biomolecular Research, BioExcel 2nd SIG Meeting, Athens, Greece, (2018).
Award, Poster Award: Nanocity 2015, the national event on nanotechnology conference, Amersfoort, Netherlands, 2015.
Computational Grant, Production grant, PRACE-ICEI 8th call computer-resource-time project icp017 of 124000 nodehours (2022) equivalent of 20k euro.
Computational Grant, Preparatory project for PRACE-ICEI 8th call computer-resource-time (2022)
Computational Grant, Preparatory project n2010PA5371 for PRACE 8th call computer-resource-time (2020).
Interviews
2025 Interview about our AF-MI method to detemine structural ensembles of disordered proteins in Greek, from Vasiliki Michopoulou @Dnews.gr.
2025 Interview about our MEMMI method to determine structural ensembles of amyloid fibrils of αβ42 from Maria Kouzinopoulou @Amna.gr.
2024 Interview about our experimental/computational pipeline to design aggregation inhibitors against amyloid fibrils occurring in Parkinson's disease
2023 Interview from Maria Kouzinopoulou @APE-MPE for the Academy of Athens Award "Chemistry Pioneering Research Article, G. Fotinos".
2022 Interview in Federation of European Biochemical Societies (FEBS) news about our experience as FEBS Post-doc fellows.
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