Alex Graudenzi
Alex Graudenzi
Institute of Molecular Bioimaging and Physiology of the Italian National Research Council (IBFM-CNR)
Verified email at unimib.it - Homepage
TitleCited byYear
Why a simple model of genetic regulatory networks describes the distribution of avalanches in gene expression data
R Serra, M Villani, A Graudenzi, SA Kauffman
Journal of theoretical biology 246 (3), 449-460, 2007
1192007
CAPRI: efficient inference of cancer progression models from cross-sectional data
D Ramazzotti, G Caravagna, L Olde Loohuis, A Graudenzi, I Korsunsky, ...
Bioinformatics 31 (18), 3016-3026, 2015
482015
Inferring tree causal models of cancer progression with probability raising
LO Loohuis, G Caravagna, A Graudenzi, D Ramazzotti, G Mauri, ...
PloS one 9 (10), e108358, 2014
462014
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
462011
A review of spatial computational models for multi-cellular systems, with regard to intestinal crypts and colorectal cancer development
G De Matteis, A Graudenzi, M Antoniotti
Journal of mathematical biology 66 (7), 1409-1462, 2013
452013
Algorithmic methods to infer the evolutionary trajectories in cancer progression
G Caravagna, A Graudenzi, D Ramazzotti, R Sanz-Pamplona, L De Sano, ...
Proceedings of the National Academy of Sciences 113 (28), E4025-E4034, 2016
432016
A stochastic model of the emergence of autocatalytic cycles
A Filisetti, A Graudenzi, R Serra, M Villani, D De Lucrezia, RM Füchslin, ...
Journal of Systems Chemistry 2 (1), 2, 2011
322011
A stochastic model of autocatalytic reaction networks
A Filisetti, A Graudenzi, R Serra, M Villani, RM Füchslin, N Packard, ...
Theory in biosciences 131 (2), 85-93, 2012
272012
The diffusion of perturbations in a model of coupled random boolean networks
R Serra, M Villani, C Damiani, A Graudenzi, A Colacci
International Conference on Cellular Automata, 315-322, 2008
272008
Robustness analysis of a Boolean model of gene regulatory network with memory
A Graudenzi, R Serra, M Villani, A Colacci, SA Kauffman
Journal of Computational Biology 18 (4), 559-577, 2011
252011
SpidermiR: An R/bioconductor package for integrative analysis with miRNA data
C Cava, A Colaprico, G Bertoli, A Graudenzi, T Silva, C Olsen, ...
International journal of molecular sciences 18 (2), 274, 2017
202017
TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data
L De Sano, G Caravagna, D Ramazzotti, A Graudenzi, G Mauri, B Mishra, ...
Bioinformatics 32 (12), 1911-1913, 2016
202016
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
192014
The simulation of gene knock-out in scale-free random boolean models of genetic networks
R Serra, M Villani, A Graudenzi, A Colacci, SA Kauffman
Networks and heterogeneous media 3 (2), 333, 2008
182008
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
182007
A pan-cancer analysis reveals high-frequency genetic alterations in mediators of signaling by the TGF-β superfamily
A Korkut, S Zaidi, RS Kanchi, S Rao, NR Gough, A Schultz, X Li, ...
Cell systems 7 (4), 422-437. e7, 2018
172018
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), 64, 2016
142016
Investigating the relation between stochastic differentiation, homeostasis and clonal expansion in intestinal crypts via multiscale modeling
A Graudenzi, G Caravagna, G De Matteis, M Antoniotti
PLoS One 9 (5), e97272, 2014
142014
A stochastic model of catalytic reaction networks in protocells
R Serra, A Filisetti, M Villani, A Graudenzi, C Damiani, T Panini
Natural Computing 13 (3), 367-377, 2014
132014
The role of energy in a stochastic model of the emergence of autocatalytic sets
A Filisetti, A Graudenzi, R Serra, M Villani, D De Lucrezia, I Poli
ECAL 2011-Eleventh European Conference on the Synthesis and Simulation of …, 2011
122011
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Articles 1–20