Modeling Cumulative Biological Phenomena with Suppes-Bayes Causal Networks

by Daniele Ramazzotti, Alex Graudenzi, Giulio Caravagna, Marco Antoniotti
Published 2018-07-01

Investigating the relation between stochastic differentiation, homeostasis and clonal expansion in intestinal crypts via multiscale modeling.

by Alex Graudenzi, Giulio Caravagna, Giovanni De Matteis, Marco Antoniotti
Published 2014-01-01

Analysis of the spatial and dynamical properties of a multiscale model of intestinal crypts

by Marco Antoniotti, Giulio Caravagna, Alex Graudenzi, Giovanni de Matteis
Published 2013-09-01

Mutational signatures and heterogeneous host response revealed via large-scale characterization of SARS-CoV-2 genomic diversity

by Alex Graudenzi, Davide Maspero, Fabrizio Angaroni, Rocco Piazza, Daniele Ramazzotti
Published 2021-02-01

Recent developments in research on catalytic reaction networks

by Roberto Serra, Marco Villani, Alex Graudenzi, Alessandro Filisetti, Chiara Damiani
Published 2013-09-01

A model of protocell based on the introduction of a semi-permeable membrane in a stochastic model of catalytic reaction networks

by Marco Villani, Chiara Damiani, Alex Graudenzi, Alessandro Filisetti, Roberto Serra
Published 2013-09-01

Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data

by Daniele Ramazzotti, Alex Graudenzi, Luca De Sano, Marco Antoniotti, Giulio Caravagna
Published 2019-04-01

Effects of delayed immune-response in tumor immune-system interplay

by Alberto d'Onofrio, Giancarlo Mauri, Marco Antoniotti, Alex Graudenzi, Giulio Caravagna
Published 2012-08-01

Growth and Division in a Dynamic Protocell Model

by Marco Villani, Alessandro Filisetti, Alex Graudenzi, Chiara Damiani, Timoteo Carletti, Roberto Serra
Published 2014-12-01

An Optimal Control Framework for the Automated Design of Personalized Cancer Treatments

by Fabrizio Angaroni, Alex Graudenzi, Alex Graudenzi, Marco Rossignolo, Marco Rossignolo, Davide Maspero, Davide Maspero, Davide Maspero, Tommaso Calarco, Rocco Piazza, Rocco Piazza, Simone Montangero, Simone Montangero, Marco Antoniotti, Marco Antoniotti
Published 2020-05-01

CoGNaC: A Chaste Plugin for the Multiscale Simulation of Gene Regulatory Networks Driving the Spatial Dynamics of Tissues and Cancer

by Simone Rubinacci, Alex Graudenzi, Giulio Caravagna, Giancarlo Mauri, James Osborne, Joe Pitt-Francis, Marco Antoniotti
Published 2015-09-01

CoGNaC: A Chaste Plugin for the Multiscale Simulation of Gene Regulatory Networks Driving the Spatial Dynamics of Tissues and Cancer

by Simone Rubinacci, Alex Graudenzi, Giulio Caravagna, Giancarlo Mauri, James Osborne, Joe Pitt-Francis, Marco Antoniotti
Published 2015-01-01

Inferring tree causal models of cancer progression with probability raising.

by Loes Olde Loohuis, Giulio Caravagna, Alex Graudenzi, Daniele Ramazzotti, Giancarlo Mauri, Marco Antoniotti, Bud Mishra
Published 2014-01-01

MaREA4Galaxy: Metabolic reaction enrichment analysis and visualization of RNA-seq data within Galaxy

by Chiara Damiani, Lorenzo Rovida, Davide Maspero, Irene Sala, Luca Rosato, Marzia Di Filippo, Dario Pescini, Alex Graudenzi, Marco Antoniotti, Giancarlo Mauri
Published 2020-01-01

Integration of single-cell RNA-seq data into population models to characterize cancer metabolism.

by Chiara Damiani, Davide Maspero, Marzia Di Filippo, Riccardo Colombo, Dario Pescini, Alex Graudenzi, Hans Victor Westerhoff, Lilia Alberghina, Marco Vanoni, Giancarlo Mauri
Published 2019-02-01