Workshop program

Monday 1 July

Registration and welcome

Session 1: Origin of life and synthetic biology

9:30 - 10:30 
Invited talk: Wim Hordijk (
Autocatalytic Sets and the Origin of Life
Please visit this page for the abstract of the talk. 

10:30 - 11:00
Coffee break

11:00 - 11:30 
Welcome by the Dean of the University of Milan Bicocca and by the chairs of UCNC and CiE.

11:30 - 12:00 
Chiara Damiani, Alessandro Filisetti, Alex Graudenzi, Marco Villani and Roberto Serra
Recent developments in research on catalytic reaction networks

12:00 - 12:20
Roberto Serra, Alessandro Filisetti, Alex Graudenzi, Chiara Damiani and Marco Villani
A model of protocell based on the introduction of a semi-permeable membrane in a stochastic model of catalytic reaction networks

12:20 - 12:50
Giordano Rampioni, Luisa Damiano, Marco Messina, Francesca D'Agnelo, Livia Leoni and Pasquale Stano
Chemical communication between synthetic and natural cells: a possible experimental design

12:50 - 14:15 
Lunch (not provided)

Session 2: Complex systems: modeling, simulation and theory

14:15 - 14:45
Alessandro Fontana and Borys Wròbel
Evolution and development of complex computational systems using the paradigm of metabolic computing in Epigenetic Tracking

14:45 - 15:15
Sebastiano de Franciscis and Alberto D'Onofrio
Bounded noise-controlled evasion of tumors from immune system control

15:15 - 15:45
Coffee break

15:45 - 16:05
Daniele Ramazzotti, Carlo Maj and Marco Antoniotti
A Model of Colonic Crypts using SBML Spatial

16:05 - 16:25
Giulio Caravagna, Alex Graudenzi, Marco Antoniotti and Giovanni De Matteis
Analysis of the spatial and dynamical properties of a multiscale model of intestinal crypts

16:25 - 16:55
Gianfranco Minati, Ignazio Licata and Eliano Pessa
Meta-Structures: The Search of Coherence in Collective Behaviours without Physics

16:55 - 17:15
(Open) round table on possible new initiatives and projects. 

19:00 - 20:00 
Aperitif at Colonne di San Lorenzo (optional)

20:00 - (late) night
Social dinner
The social dinner will take place at the Antica Hostaria della Lanterna, Via Mercalli, 3, 20122 Milano, Italia. 

Via Giuseppe Mercalli, 3

Tuesday 2 July


Session 3: Bioinformatics and Systems Biology

9:30 - 10:30 
Invited talk: Alberto D'Onofrio (IEO, European Institute of Oncology)
The role of extrinsic bounded noises in Systems Biology, and their interplay with intrinsic stochasticity
Please visit this page for the abstract of the talk

10:30 - 11:00
Coffee break

11:00 - 11:30 
Andrea Maggiolo Schettini, Paolo Milazzo and Giovanni Pardini
Application of a Semi-automatic Algorithm for Identification of Molecular Components in SBML Models

11:30 - 11:50
Domenico Fraccalvieri, Laura Bonati and Fabio Stella
Self Organizing Maps to efficiently cluster and functionally interpret protein conformational ensembles

11:50 - 12:10
Daniela Besozzi, Giulio Caravagna, Paolo Cazzaniga, Marco Nobile, Dario Pescini and Alessandro Re
GPU-powered Simulation Methodologies for Biological Systems

12:10 - 12:30
Chiara Damiani, Riccardo Colombo, Sara Molinari, Dario Pescini, Daniela Gaglio, Marco Vanoni, Lillia Alberghina and Giancarlo Mauri
An ensemble approach to the study of the emergence of metabolic and proliferative disorders via Flux Balance Analysis

Session 4: Bioinspired and evolutionary computation

12:30 - 12:50
Gianluca Colombo, Ettore Colombo and Andrea Bonomi
Semi-structured data extraction and modelling: the case of Spreadsheets

12:50 - 14:10
Lunch (not provided)

14:10 - 14:40
Emanuele Massaro, Andrea Guazzini, Franco Bagnoli and Henrik Olsson
Impact of local information in growing networks

14:40 - 15:10
Andrea Gaetano Citrolo and Giancarlo Mauri
An Hybrid Monte Carlo Ant Colony Optimization Approach for Protein Structure Prediction in the HP Model

15:10 - 15:30
Simone Righi and Karoly Takacs
Signed Networks, Triadic Interactions and the Evolution of Cooperation

15:30 - 16:00 
Coffee break

16:00 - 17:00
Invited talk: Enrico Formenti (Université de Nice-Sophia Antipolis, joint invited speaker with UCNC 2013)
Asymptotic Dynamics of (Some) Asynchronous Cellular Automata
Please visit this page for the abstract of the talk.