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Simone Furini

Professore associato

Dipartimento di Ingegneria dell'Energia Elettrica e dell'Informazione "Guglielmo Marconi"


Curriculum vitae


2008 - PhD in Bioengineering. Thesis: Computational analyses on the structure-function relation in ion channels. Supervisor: Prof. Silvio Cavalcanti

2003 - Master degree in Electronic Engineering, with honours. University of Bologna


Collaboration to Research Projects

2021 INTERVENE. 5-year 10 million € EU funded project under grant agreement No 101016775. Role: Participant. The aim of INTERVENE is to integrate AI and human genetics to develop next generation tools for disease prevention, diagnosis, and personalised treatment.

2021 PRACE Partnership for advanced computing in Europe. TRPs - Structure-based characterization of novel TRPV inhibitors. Role: collaborator. 71M CPU hours.

2019 PRACE Partnership for advanced computing in Europe. Mechanisms of ion conduction in sodium channels. Role: collaborator. 102M CPU hours.

2018 ISCRA grant for High-Performance Computing resources in CINECA. Tuning protein-DNA interactions by residue mutations. Role: PI.

2017 TRANSVAC2. European Union's Horizon 2020 research and innovation programme under grant agreement N° 730964. TRANSVAC2 offers services for supporting vaccine development. Role: responsible for services Computational analyses of multiparametric flow cytometry data and Mathematical Modelling.

2016 ISCRA grant for High-Performance Computing resources in CINECA. Markov state models of K+ channels estimated from atomistic simulations. Role: PI. 3M CPU hours.

2015 ERC-starting grant. Project: A multiscale strategy to include atomic details in simulations of excitable cells. The project was ranked in class A (fully meet the ERC's excellence criterion).

2014 Grant by the Tumour Institute of Tuscany. Project: Identification of genetic bases of individual predisposition to lung cancer in non-smokers. Amount: 118.000 euros. Role: Coordinator of the bioinformatic unit.

2014 ISCRA grant for High-Performance Computing resources in CINECA. Bias-exchange simulations of ion conduction in Na+-channels. Role: PI. 4.3M CPU hours.

2012 ISCRA grant for High-Performance Computing resources in CINECA. Molecular Dynamics simulations of Na+ conduction in potassium channels. Role: PI. 620K CPU hours.

2011 ISCRA grant for High-performance computing resources in CINECA. Metadynamics simulations of the protein-DNA recognition process. Role: PI. 150K CPU hours.

2010 ISCRA grant for High-performance computing resources in CINECA. Molecular Dynamics simulations of repressor proteins scanning the DNA sequence. Role: PI. 140K CPU hours.

2009 Paolo Inghingolo prize for best thesis in Bioengineering, awarded by the Italian National Bioengineering Group (GNB).


Invited Talks

2019 Conduction and selectivity in Na+ channels. March 14-15, 2019. Molecular Dynamics Today: Current challenges and future perspectives for numerical simulations in the Life Sciences. Bologna, Italy

2018 Modelling noise in the design of synthetic gene networks. July 27-29, 2018. International Synthetic & Systems Biology Summer School. Siena, Italy

2017 Particle based simulations of ion conduction. Workshop on mathematical modelling and simulation of electrolytes with application to molecular physiology. January 10-11, 2017. National Center for Theoretical Sciences, Taipei, Taiwan

2017 Algorithms to accelerate sampling in atomistic simulations of membrane proteins. 25th annual workshop on differential equations. January 7-8, 2017. National Chiao Tung University, Hsinchu, Taiwan

2016 Multiscale Modeling in Molecular Systems. December 6, 2016. Institute of Advanced Studies. Kőszeg, Hungary

2013 Unveiling the atomic mechanisms of Na+/K+ selectivity by Molecular Dynamics Simulations. 4th Italian-Hispano-Portoguese Workshop. October 17-19, 2013. Mallorca, Spain

2011 All-atom Molecular Dynamics Simulations of Specific and Nonspecific Binding of Repressor CECAM workshop. Dynamics of Protein-Nucleic Acid Interactions: Integrating Simulations with Experiments. September 14-16, 2011. Zürich, Switzerland

2010 Synthetic circuits for memories and oscillators. 29th Annual School on Bioengineering, September 13-17, 2010. Brixen, Italy

2010 Molecular Dynamics simulations of biological molecules. 9th International Summer School Biocomplexity from gene to system. July 1-7, 2010. Istanbul, Turkey


Scientific Boards

2020 TRANSVAC2 Training Course: Systems Biology of Vaccinology. 5-6 November, 2020. Online meeting.

2019 IEEE International Conference on Computational Intelligence in Bioinformatics and Computational Biology. July 9-11, 2019. Siena, Italy

2018 CECAM meeting - Multiscale modelling in electrophysiology: from atoms to organs. March 26-28, 2018. Lugano, Switzerland

2017 4th International Synthetic & Systems Biology Summer School. July 17-21, 2017 Robinson College, University of Cambridge

2016 3th International Synthetic & Systems Biology Summer School. July 8 – 14, 2016, Volterra (Pisa) Tuscany, Italy


Visiting Periods

2016 iASK fellowship. Department of Physical Chemistry, University of Pannonia, Veszprém. Host: Dezső Boda

2013 Visiting fellow at the Department of Chemistry, King’s College London (United Kingdom). Host Dr. Carmen Domene

2008 Physical and theoretical Chemistry Laboratory, University of Oxford (United Kingdom). Host Dr. Carmen Domene

2005 Max Planck Institute for Experimental Medicine, Goettingen (Germany). Host Dr. Luis A. Pardo

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