A metabolic core model elucidates how enhanced utilization of glucose and glutamine, with enhanced glutamine-dependent lactate production, promotes cancer cell growth: The … C Damiani, R Colombo, D Gaglio, F Mastroianni, D Pescini, ... PLoS computational biology 13 (9), e1005758, 2017 | 80 | 2017 |
Integration of single-cell RNA-seq data into population models to characterize cancer metabolism C Damiani, D Maspero, M Di Filippo, R Colombo, D Pescini, A Graudenzi, ... PLoS computational biology 15 (2), e1006733, 2019 | 79 | 2019 |
Dynamical properties of a Boolean model of gene regulatory network with memory A Graudenzi, R Serra, M Villani, C Damiani, A Colacci, SA Kauffman Journal of Computational Biology 18 (10), 1291-1303, 2011 | 70 | 2011 |
Computational strategies for a system-level understanding of metabolism P Cazzaniga, C Damiani, D Besozzi, R Colombo, MS Nobile, D Gaglio, ... Metabolites 4 (4), 1034-1087, 2014 | 60 | 2014 |
Systems metabolomics: From metabolomic snapshots to design principles C Damiani, D Gaglio, E Sacco, L Alberghina, M Vanoni Current opinion in biotechnology 63, 190-199, 2020 | 50 | 2020 |
Zooming-in on cancer metabolic rewiring with tissue specific constraint-based models M Di Filippo, R Colombo, C Damiani, D Pescini, D Gaglio, M Vanoni, ... Computational biology and chemistry 62, 60-69, 2016 | 39 | 2016 |
Cell–cell interaction and diversity of emergent behaviours C Damiani, R Serra, M Villani, SA Kauffman, A Colacci IET systems biology 5 (2), 137-144, 2011 | 39 | 2011 |
Dynamical criticality in gene regulatory networks M Villani, L La Rocca, SA Kauffman, R Serra Complexity 2018 (1), 5980636, 2018 | 34 | 2018 |
popFBA: tackling intratumour heterogeneity with Flux Balance Analysis C Damiani, M Di Filippo, D Pescini, D Maspero, R Colombo, G Mauri Bioinformatics 33 (14), i311-i318, 2017 | 31 | 2017 |
The diffusion of perturbations in a model of coupled random boolean networks R Serra, M Villani, C Damiani, A Graudenzi, A Colacci Lecture Notes in Computer Science, 315-322, 2008 | 31 | 2008 |
Growth and division in a dynamic protocell model M Villani, A Filisetti, A Graudenzi, C Damiani, T Carletti, R Serra Life 4 (4), 837-864, 2014 | 29 | 2014 |
Integration of transcriptomic data and metabolic networks in cancer samples reveals highly significant prognostic power A Graudenzi, D Maspero, M Di Filippo, M Gnugnoli, C Isella, G Mauri, ... Journal of biomedical informatics, 2018 | 27 | 2018 |
INTEGRATE: Model-based multi-omics data integration to characterize multi-level metabolic regulation M Di Filippo, D Pescini, BG Galuzzi, M Bonanomi, D Gaglio, E Mangano, ... PLoS computational biology 18 (2), e1009337, 2022 | 26 | 2022 |
Single-cell digital twins for cancer preclinical investigation MD Filippo, C Damiani, M Vanoni, D Maspero, G Mauri, L Alberghina, ... Metabolic Flux Analysis in Eukaryotic Cells: Methods and Protocols, 331-343, 2020 | 22 | 2020 |
CABeRNET: a Cytoscape app for augmented Boolean models of gene regulatory NETworks A Paroni, A Graudenzi, G Caravagna, C Damiani, G Mauri, M Antoniotti BMC bioinformatics 17, 1-12, 2016 | 22 | 2016 |
Information transfer among coupled random boolean networks C Damiani, SA Kauffman, R Serra, M Villani, A Colacci Cellular Automata: 9th International Conference on Cellular Automata for …, 2010 | 22 | 2010 |
An ensemble evolutionary constraint-based approach to understand the emergence of metabolic phenotypes C Damiani, D Pescini, R Colombo, S Molinari, L Alberghina, M Vanoni, ... Natural Computing 13 (3), 321-331, 2014 | 21 | 2014 |
Parameter sensitivity analysis of stochastic models: Application to catalytic reaction networks C Damiani, A Filisetti, A Graudenzi, P Lecca Computational biology and chemistry 42, 5-17, 2013 | 21 | 2013 |
Interacting random boolean networks R Serra, M Villani, C Damiani, A Graudenzi, A Colacci, SA Kauffman Proceedings of ECCS07: European Conference on Complex Systems, 1-15, 2007 | 21 | 2007 |
Tumor heterogeneity: preclinical models, emerging technologies, and future applications M Proietto, M Crippa, C Damiani, V Pasquale, E Sacco, M Vanoni, ... Frontiers in Oncology 13, 1164535, 2023 | 18 | 2023 |