Estimation of Kinetic Reaction Constants: Exploiting Reboot Strategies to Improve PSO's Performance. - Simone Spolaor; Andrea Tangherloni; Leonardo Rundo; Paolo Cazzaniga; Marco S. Nobile (CIBB, 2017)

Reboot strategies in particle swarm optimization and their impact on parameter estimation of biochemical systems. - Simone Spolaor; Andrea Tangherloni; Leonardo Rundo; Marco S. Nobile; Paolo Cazzaniga (CIBCB, 2017)

Efficient Simulation of Reaction Systems on Graphics Processing Units. - Marco S. Nobile; Antonio E. Porreca; Simone Spolaor; Luca Manzoni; Paolo Cazzaniga; Giancarlo Mauri; Daniela Besozzi (Fundam. Informaticae, 2017)

Computational Intelligence for Parameter Estimation of Biochemical Systems. - Marco S. Nobile; Andrea Tangherloni; Leonardo Rundo; Simone Spolaor; Daniela Besozzi; Giancarlo Mauri; Paolo Cazzaniga (CEC, 2018)

High Performance Computing for Haplotyping: Models and Platforms. - Andrea Tangherloni; Leonardo Rundo; Simone Spolaor; Marco S. Nobile; Ivan Merelli; Daniela Besozzi; Giancarlo Mauri; Paolo Cazzaniga; Pietro Liò (Euro-Par Workshops, 2018)

GPU-Powered Multi-Swarm Parameter Estimation of Biological Systems: A Master-Slave Approach. - Andrea Tangherloni; Leonardo Rundo; Simone Spolaor; Paolo Cazzaniga; Marco S. Nobile (PDP, 2018)

ProCell: Investigating cell proliferation with Swarm Intelligence. - Marco S. Nobile; Thalia Vlachou; Simone Spolaor; Paolo Cazzaniga; Giancarlo Mauri; Pier Giuseppe Pelicci; Daniela Besozzi (CIBCB, 2019)

A Swarm Intelligence Approach to Avoid Local Optima in Fuzzy C-Means Clustering. - Caro Fuchs; Simone Spolaor; Marco S. Nobile; Uzay Kaymak (FUZZ-IEEE, 2019)

Bridging Qualitative and Quantitative Modeling with FuzzX. - Simone Spolaor (ICTCS, 2019)

A Novel Multi-objective Approach to Fuzzy Clustering. - Simone Spolaor; Caro Fuchs; Uzay Kaymak; Marco S. Nobile (SSCI, 2019)

Biochemical parameter estimation vs. benchmark functions: A comparative study of optimization performance and representation design. - Andrea Tangherloni; Simone Spolaor; Paolo Cazzaniga; Daniela Besozzi; Leonardo Rundo; Giancarlo Mauri; Marco S. Nobile (Appl. Soft Comput., 2019)

Modeling cell proliferation in human acute myeloid leukemia xenografts. - Marco S. Nobile; Thalia Vlachou; Simone Spolaor; Daniela Bossi; Paolo Cazzaniga; Luisa Lanfrancone; Giancarlo Mauri; Pier Giuseppe Pelicci; Daniela Besozzi (Bioinform., 2019)

GenHap: a novel computational method based on genetic algorithms for haplotype assembly. - Andrea Tangherloni; Simone Spolaor; Leonardo Rundo; Marco S. Nobile; Paolo Cazzaniga; Giancarlo Mauri; Pietro Liò; Ivan Merelli; Daniela Besozzi (BMC Bioinform., 2019)

Towards Human Cell Simulation. - Simone Spolaor; Marco Gribaudo; Mauro Iacono; Tomas Kadavy; Zuzana Komínková Oplatková; Giancarlo Mauri; Sabri Pllana; Roman Senkerik; Natalija Stojanovic; Esko Turunen; Adam Viktorin; Salvatore Vitabile; et al. (High-Performance Modelling and Simulation for Big Data Applications, 2019)

Which random is the best random? A study on sampling methods in Fourier surrogate modeling. - Marco S. Nobile; Simone Spolaor; Paolo Cazzaniga; Daniele M. Papetti; Daniela Besozzi; Daniel A. Ashlock; Luca Manzoni (CEC, 2020)

Fourier Surrogate Models of Dilated Fitness Landscapes in Systems Biology : or how we learned to torture optimization problems until they confess. - Marco S. Nobile; Paolo Cazzaniga; Simone Spolaor; Daniela Besozzi; Luca Manzoni (CIBCB, 2020)

pyFUME: a Python Package for Fuzzy Model Estimation. - Caro Fuchs; Simone Spolaor; Marco S. Nobile; Uzay Kaymak (FUZZ-IEEE, 2020)

On the automatic calibration of fully analogical spiking neuromorphic chips. - Daniele M. Papetti; Simone Spolaor; Daniela Besozzi; Paolo Cazzaniga; Marco Antoniotti; Marco S. Nobile (IJCNN, 2020)

A Graph Theory Approach to Fuzzy Rule Base Simplification. - Caro Fuchs; Simone Spolaor; Marco S. Nobile; Uzay Kaymak (IPMU (1), 2020)

Fuzzy modeling and global optimization to predict novel therapeutic targets in cancer cells. - Marco S. Nobile; Giuseppina Votta; Roberta Palorini; Simone Spolaor; Humberto De Vitto; Paolo Cazzaniga; Francesca Ricciardiello; Giancarlo Mauri; Lilia Alberghina; Ferdinando Chiaradonna; Daniela Besozzi (Bioinform., 2020)

Surfing on Fitness Landscapes: A Boost on Optimization by Fourier Surrogate Modeling. - Luca Manzoni; Daniele M. Papetti; Paolo Cazzaniga; Simone Spolaor; Giancarlo Mauri; Daniela Besozzi; Marco S. Nobile (Entropy, 2020)

Computational Intelligence for Life Sciences. - Daniela Besozzi; Luca Manzoni; Marco S. Nobile; Simone Spolaor; Mauro Castelli; Leonardo Vanneschi; Paolo Cazzaniga; Stefano Ruberto; Leonardo Rundo; Andrea Tangherloni (Fundam. Informaticae, 2020)

Simpful: A User-Friendly Python Library for Fuzzy Logic. - Simone Spolaor; Caro Fuchs; Paolo Cazzaniga; Uzay Kaymak; Daniela Besozzi; Marco S. Nobile (Int. J. Comput. Intell. Syst., 2020)

Coupling Mechanistic Approaches and Fuzzy Logic to Model and Simulate Complex Systems. - Simone Spolaor; Marco S. Nobile; Giancarlo Mauri; Paolo Cazzaniga; Daniela Besozzi (IEEE Trans. Fuzzy Syst., 2020)

cuProCell: GPU-Accelerated Analysis of Cell Proliferation With Flow Cytometry Data. - Marco S. Nobile; Eric Nisoli; Thalia Vlachou; Simone Spolaor; Paolo Cazzaniga; Giancarlo Mauri; Pier Giuseppe Pelicci; Daniela Besozzi (IEEE J. Biomed. Health Informatics, 2020)

Fuzzy logic for the modeling and simulation of complex systems. - Simone Spolaor (2020)

The Impact of Representation on the Optimization of Marker Panels for Single-cell RNA Data. - Andrea Tangherloni; Simone G. Riva; Simone Spolaor; Daniela Besozzi; Marco S. Nobile; Paolo Cazzaniga (CEC, 2021)

A comparison of multi-objective optimization algorithms to identify drug target combinations. - Simone Spolaor; Daniele M. Papetti; Paolo Cazzaniga; Daniela Besozzi; Marco S. Nobile (CIBCB, 2021)

FiCoS: A fine-grained and coarse-grained GPU-powered deterministic simulator for biochemical networks. - Andrea Tangherloni; Marco S. Nobile; Paolo Cazzaniga; Giulia Capitoli; Simone Spolaor; Leonardo Rundo; Giancarlo Mauri; Daniela Besozzi (PLoS Comput. Biol., 2021)

The Impact of Variable Selection and Transformation on the Interpretability and Accuracy of Fuzzy Models. - Caro Fuchs; Simone Spolaor; Uzay Kaymak; Marco S. Nobile (CIBCB, 2022)

Local Bubble Dilation Functions: Hypersphere-bounded Landscape Deformations Simplify Global Optimization. - Daniele M. Papetti; Vasco Coelho; Daniel A. Ashlock; Paolo Cazzaniga; Simone Spolaor; Daniela Besozzi; Marco S. Nobile (CIBCB, 2022)

SMGen: A Generator of Synthetic Models of Biochemical Reaction Networks. - Simone G. Riva; Paolo Cazzaniga; Marco S. Nobile; Simone Spolaor; Leonardo Rundo; Daniela Besozzi; Andrea Tangherloni (Symmetry, 2022)

Barcode demultiplexing of nanopore sequencing raw signals by unsupervised machine learning. - Daniele M. Papetti; Simone Spolaor; Iman Nazari; Andrea Tirelli; Tommaso Leonardi; Chiara Caprioli; Daniela Besozzi; Thalia Vlachou; Pier Giuseppe Pelicci; Paolo Cazzaniga; Marco S. Nobile (Frontiers Bioinform., 2023)

Ten quick tips for fuzzy logic modeling of biomedical systems. - Davide Chicco; Simone Spolaor; Marco S. Nobile (PLoS Comput. Biol., 2023)