Chiara Damiani, P.h.D

Current Position:

Fixed-term researcher (RTD-B in INF/01) at Department of Biotechnology and BiosciencesUniversity of Milan Bicocca

Affiliated with ISBE-it/SYSBIO Center of Systems Biology

Associated editor of BMC Bioinformatics


PhD in Multiscale Modeling, Computational Simulations and Characterization in Material and Life Sciences from University of Modena and Reggio Emilia (year 2011)

Previous Positions:

  • Post-doc research associate at the Department of Informatics, Systems and Communication

  • Junior Researcher at The Microsoft Research - University of Trento Centre for Computational and Systems Biology

  • Visiting PhD research student under the supervision of Prof. Stuart Kauffman at Institute for Biocomplexity and Informatics, University of Calgary


  • Databases

  • Computer Science

Ongoing projects

Combining multi-target regression deep neural networks and kinetic modeling to predict relative fluxes in reaction systems

Selected Publications:

  • A. Graudenzi, Davide Maspero, Chiara Damiani*, FBCA, A Multiscale Modeling Framework Combining Cellular Automata and Flux Balance Analysis. Journal of Cellular Automata, 15(1-2):1–21, 2020.

  • C. Damiani*, D. Maspero, M. Di Filippo, R. Colombo, D. Pescini, A. Graudenzi, H. V. Westerhoff, L. Alberghina, M. Vanoni e G. Mauri. Integration of single-cell RNA-seq data into population models to characterize cancer metabolism, PLoS Computational Biology, 15(2), e1006733, 2019. DOI: 10.1371/journal.pcbi.1006733

  • A. Graudenzi, D. Maspero, M. Di Filippo, M. Gnugnoli, C. Isella, G. Mauri, E. Medico, M Antoniotti e C. Damiani*. Integration of transcriptomic data and metabolic networks in cancer samples reveals highly significant prognostic power. Journal of Biomedical Informatics, 87: 37-49, 2018. DOI: 10.1016/j.jbi.2018.09.010

  • C. Damiani, R. Colombo, D. Gaglio, F. Mastroianni, D. Pescini, H.V. Westerhoff, G. Mauri, M. Vanoni, L. Alberghina. A metabolic core model elucidates how enhanced utilization of glucose and glutamine, with enhanced glutamine-dependent lactate production, promotes cancer cell growth: The WarburQ effect. PLoS computational biology, 13(9), e1005758, 2017. DOI: 10.1371/journal.pcbi.1005758

  • C. Damiani*, M. Di Filippo, D. Pescini, D. Maspero, R. Colombo and G. Mauri. popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. Bioinformatics, 33(14): i311-i318, 2017. DOI: 10.1093/bioinformatics/btx251

  • M. Di Filippo, R. Colombo, C. Damiani, D. Pescini, D. Gaglio, M. Vanoni, L. Alberghina, G. Mauri. Zooming in cancer metabolic rewiring with tissue specific constraint-based models. Journal of Computational Biology and Chemistry: 60-69, 2016. DOI: 10.1016/j.compbiolchem.2016.03.002

  • A. Paroni, A. Graudenzi, G. Caravagna, C. Damiani, G. Mauri, M. Antoniotti. CABeRNET: a Cytoscape app for Augmented Boolean models of gene Regulatory NETworks. BMC Bioinformatics, 17:64, 2016. DOI: 10.1186/s12859-016-0914-z

  • M. Villani, A. Filisetti, A. Graudenzi, C. Damiani, T. Carletti e R. Serra. Growth and Division in a Dynamic Protocell Model. Life, 4(4): 837-864, 2014. DOI: 10.3390/life4040837

  • C. Damiani, D. Pescini, R. Colombo, S. Molinari, L. Alberghina, M. Vanoni, e G. Mauri. An ensemble evolutionary constraint-based approach to understand the emergence of metabolic phenotypes. Natural Computing, 13(3): 321-331, 2014. DOI: 10.1007/s11047-014-9439-4

  • C. Damiani, R. Serra, M. Villani, S.A. Kauffman, e A. Colacci. Cell-cell interaction and diversity of emergent behaviours. IET Systems Biology, 5(2):137–144, 2011. ISSN 1751-8849. DOI: 10.1049/iet-syb.2010.0039.

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