Davide Chiarugi

Publication Activity (10 Years)

Years Active: 2004-2023
Publications (10 Years): 9

Top Topics

Stochastic Model

Chemical Reactions

Gene Regulatory

Temporal Dependencies

Top Venues

BMC Syst. Biol.

Electron. Notes Theor. Comput. Sci.

Programming Languages with Applications to Biology and Security

Publications

Alberto Mulone, Sherine Awad, Davide Chiarugi, Marco Aldinucci
Porting the Variant Calling Pipeline for NGS data in cloud-HPC environment. COMPSAC (2023)
Giorgia Giacomini, Caterina Graziani, Veronica Lachi, Pietro Bongini, Niccolò Pancino, Monica Bianchini, Davide Chiarugi, Angelo Valleriani, Paolo Andreini
A Neural Network Approach for the Analysis of Reproducible Ribo-Seq Profiles. Algorithms 15 (8) (2022)
Carlos Olarte, Davide Chiarugi, Moreno Falaschi, Diana Hermith
A proof theoretic view of spatial and temporal dependencies in biochemical systems. Theor. Comput. Sci. 641 (2016)
Celine Sin, Davide Chiarugi, Angelo Valleriani
Single-molecule modeling of mRNA degradation by miRNA: Lessons from data. BMC Syst. Biol. 9 (S-3) (2015)
Paolo Paradisi, Paolo Allegrini, Davide Chiarugi
A renewal model for the emergence of anomalous solute crowding in liposomes. BMC Syst. Biol. 9 (S-3) (2015)
Davide Chiarugi, Moreno Falaschi, Diana Hermith, Carlos Olarte
Verification of Spatial and Temporal Modalities in Biochemical Systems. Electron. Notes Theor. Comput. Sci. 316 (2015)
Davide Chiarugi, Moreno Falaschi, Carlos Olarte, Catuscia Palamidessi
A Declarative View of Signaling Pathways. Programming Languages with Applications to Biology and Security (2015)
Davide Chiarugi, Moreno Falaschi, Diana Hermith, Carlos Olarte, Luca Torella
Modelling non-Markovian dynamics in biochemical reactions. BMC Syst. Biol. 9 (S-3) (2015)
Chiara Bodei, Luca Bortolussi, Davide Chiarugi, Maria Luisa Guerriero, Alberto Policriti, Alessandro Romanel
On the impact of discreteness and abstractions on modelling noise in gene regulatory networks. Comput. Biol. Chem. 56 (2015)
Chiara Bodei, Linda Brodo, Roberto Bruni, Davide Chiarugi
A Flat Process Calculus for Nested Membrane Interactions. Sci. Ann. Comput. Sci. 24 (1) (2014)
Davide Chiarugi, Moreno Falaschi, Diana Hermith, Carlos Olarte
A framework for modelling spatially dependent interactions of biological systems in CCP. IWBBIO (2014)
Paolo Paradisi, Davide Chiarugi
Biochemical Reactions as Renewal Processes: the case of mRNA Degradation. IWBBIO (2014)
Davide Chiarugi, Moreno Falaschi, Diana Hermith, Roberto Marangoni, Carlos Olarte
Stochastic modelling of non Markovian Dynamics in Biochemical Reactions. IWBBIO (2013)
Davide Chiarugi, Moreno Falaschi, Diana Hermith, Michell Guzmán, Carlos Olarte
Simulating Signalling Pathways With BioWayS. Electron. Notes Theor. Comput. Sci. 293 (2013)
Chiara Bodei, Linda Brodo, Davide Chiarugi
Control Flow Analysis of Generalised Boolean Networks. Electron. Notes Theor. Comput. Sci. 284 (2012)
Chiara Bodei, Andrea Bracciali, Davide Chiarugi, Roberta Gori
A Taxonomy of Causality-Based Biological Properties FBTC (2010)
Davide Chiarugi, Moreno Falaschi, Carlos Olarte, Catuscia Palamidessi
Compositional modelling of signalling pathways in timed concurrent constraint programming. BCB (2010)
Chiara Bodei, Andrea Bracciali, Davide Chiarugi
Control Flow Analysis for Brane Calculi. Electron. Notes Theor. Comput. Sci. 227 (2009)
Chiara Bodei, Andrea Bracciali, Davide Chiarugi
On deducing causality in metabolic networks. BMC Bioinform. 9 (S-4) (2008)
Davide Chiarugi, Pierpaolo Degano, Jan Bert Van Klinken, Roberto Marangoni
Cells in Silico: A Holistic Approach. SFM (2008)
Davide Chiarugi, Pierpaolo Degano, Roberto Marangoni
A Computational Approach to the Functional Screening of Genomes. PLoS Comput. Biol. 3 (9) (2007)
Davide Chiarugi, M. Chinellato, Pierpaolo Degano, G. Lo Brutto, Roberto Marangoni
Feedbacks and Oscillations in the Virtual Cell VICE. CMSB (2006)
Davide Chiarugi, Michele Curti, Pierpaolo Degano, Roberto Marangoni
VICE: A VIrtual CEll. CMSB (2004)