Alex Graudenzi
Orcid: 0000-0001-5452-1918
According to our database1,
Alex Graudenzi
authored at least 54 papers
between 2008 and 2023.
Collaborative distances:
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Bibliography
2023
LACE 2.0: an interactive R tool for the inference and visualization of longitudinal cancer evolution.
BMC Bioinform., December, 2023
A Bayesian method to infer copy number clones from single-cell RNA and ATAC sequencing.
PLoS Comput. Biol., November, 2023
Unity is strength: Improving the detection of adversarial examples with ensemble approaches.
Neurocomputing, October, 2023
Characterization of cancer subtypes associated with clinical outcomes by multi-omics integrative clustering.
Comput. Biol. Medicine, August, 2023
2022
LACE: Inference of cancer evolution models from longitudinal single-cell sequencing data.
J. Comput. Sci., 2022
J-SPACE: a Julia package for the simulation of spatial models of cancer evolution and of sequencing experiments.
BMC Bioinform., 2022
PMCE: efficient inference of expressive models of cancer evolution with high prognostic power.
Bioinform., 2022
Exploring the Solution Space of Cancer Evolution Inference Frameworks for Single-Cell Sequencing Data.
Proceedings of the Artificial Life and Evolutionary Computation - 16th Italian Workshop, 2022
2021
VERSO: A comprehensive framework for the inference of robust phylogenies and the quantification of intra-host genomic diversity of viral samples.
Patterns, 2021
Combining multi-target regression deep neural networks and kinetic modeling to predict relative fluxes in reaction systems.
Inf. Comput., 2021
EAD: an ensemble approach to detect adversarial examples from the hidden features of deep neural networks.
CoRR, 2021
Proceedings of the Artificial Life and Evolutionary Computation - 15th Italian Workshop, 2021
2020
FBCA, A Multiscale Modeling Framework Combining Cellular Automata and Flux Balance Analysis.
J. Cell. Autom., 2020
The Influence of Nutrients Diffusion on a Metabolism-driven Model of a Multi-cellular System.
Fundam. Informaticae, 2020
Proceedings of the Machine Learning, Optimization, and Data Science, 2020
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2020
Proceedings of the Italian Workshop on Explainable Artificial Intelligence co-located with 19th International Conference of the Italian Association for Artificial Intelligence, 2020
2019
Integration of single-cell RNA-seq data into population models to characterize cancer metabolism.
PLoS Comput. Biol., 2019
Efficient computational strategies to learn the structure of probabilistic graphical models of cumulative phenomena.
J. Comput. Sci., 2019
Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data.
BMC Bioinform., 2019
Proceedings of the Artificial Life and Evolutionary Computation - 14th Italian Workshop, 2019
cyTRON and cyTRON/JS: Two Cytoscape-Based Applications for the Inference of Cancer Evolution Models.
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2019
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2019
2018
Integration of transcriptomic data and metabolic networks in cancer samples reveals highly significant prognostic power.
J. Biomed. Informatics, 2018
Proceedings of the Artificial Life and Evolutionary Computation - 13th Italian Workshop, 2018
Proceedings of the Computational Science - ICCS 2018, 2018
Modeling Spatio-Temporal Dynamics of Metabolic Networks with Cellular Automata and Constraint-Based Methods.
Proceedings of the Cellular Automata, 2018
2017
Learning mutational graphs of individual tumor evolution from multi-sample sequencing data.
CoRR, 2017
Learning the Probabilistic Structure of Cumulative Phenomena with Suppes-Bayes Causal Networks.
CoRR, 2017
2016
Int. J. Data Min. Bioinform., 2016
CoRR, 2016
BMC Bioinform., 2016
TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data.
Bioinform., 2016
2015
Bioinform., 2015
2014
Investigating the Role of Network Topology and Dynamical Regimes on the Dynamics of a Cell Differentiation Model.
Proceedings of the Advances in Artificial Life and Evolutionary Computation, 2014
Proceedings of the Advances in Artificial Life and Evolutionary Computation, 2014
2013
A model of protocell based on the introduction of a semi-permeable membrane in a stochastic model of catalytic reaction networks.
Proceedings of the Proceedings Wivace 2013, 2013
Proceedings of the Proceedings Wivace 2013, 2013
Analysis of the spatial and dynamical properties of a multiscale model of intestinal crypts.
Proceedings of the Proceedings Wivace 2013, 2013
Parameter sensitivity analysis of stochastic models: Application to catalytic reaction networks.
Comput. Biol. Chem., 2013
GeStoDifferent: a Cytoscape plugin for the generation and the identification of gene regulatory networks describing a stochastic cell differentiation process.
Bioinform., 2013
Proceedings of the Twelfth European Conference on the Synthesis and Simulation of Living Systems: Advances in Artificial Life, 2013
2012
Proceedings of the Proceedings First International Workshop on Hybrid Systems and Biology, 2012
2011
J. Comput. Biol., 2011
J. Comput. Biol., 2011
Proceedings of the Advances in Artificial Life: 20th Anniversary Edition, 2011
2010
Proceedings of the Neural Nets WIRN10, 2010
2008
The simulation of gene knock-out in scale-free random Boolean models of genetic networks.
Networks Heterog. Media, 2008
Proceedings of the New Directions in Neural Networks, 2008
Proceedings of the Cellular Automata, 2008