Paolo Cazzaniga

Orcid: 0000-0001-7780-0434

According to our database1, Paolo Cazzaniga authored at least 87 papers between 2005 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2024
A Fast Feature Selection for Interpretable Modeling Based on Fuzzy Inference Systems.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2024

A Modified EACOP Implementation for Real-Parameter Single Objective Optimization Problems.
Proceedings of the IEEE Congress on Evolutionary Computation, 2024

2023
MAGNETO: Cell type marker panel generator from single-cell transcriptomic data.
J. Biomed. Informatics, November, 2023

Barcode demultiplexing of nanopore sequencing raw signals by unsupervised machine learning.
Frontiers Bioinform., May, 2023

Unsupervised neural networks as a support tool for pathology diagnosis in MALDI-MSI experiments: A case study on thyroid biopsies.
Expert Syst. Appl., April, 2023

Simplifying Fitness Landscapes Using Dilation Functions Evolved With Genetic Programming.
IEEE Comput. Intell. Mag., February, 2023

Consensus Clustering Strategy for Cell Type Assignments of scRNA-seq Data.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2023

The Domination Game: Dilating Bubbles to Fill Up Pareto Fronts.
Proceedings of the IEEE Congress on Evolutionary Computation, 2023

2022
SMGen: A Generator of Synthetic Models of Biochemical Reaction Networks.
Symmetry, 2022

Multi-objective Optimization for Marker Panel Identification in Single-cell Data.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2022

A Deep Learning Pipeline for the Automatic cell type Assignment of scRNA-seq Data.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2022

Local Bubble Dilation Functions: Hypersphere-bounded Landscape Deformations Simplify Global Optimization.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2022

2021
A CUDA-powered method for the feature extraction and unsupervised analysis of medical images.
J. Supercomput., 2021

FiCoS: A fine-grained and coarse-grained GPU-powered deterministic simulator for biochemical networks.
PLoS Comput. Biol., 2021

Investigating the performance of multi-objective optimization when learning Bayesian Networks.
Neurocomputing, 2021

Selected papers from the 15th and 16th international conference on Computational Intelligence Methods for Bioinformatics and Biostatistics.
BMC Bioinform., 2021

A comparison of multi-objective optimization algorithms to identify drug target combinations.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2021

The Impact of Representation on the Optimization of Marker Panels for Single-cell RNA Data.
Proceedings of the IEEE Congress on Evolutionary Computation, 2021

If You Can't Beat It, Squash It: Simplify Global Optimization by Evolving Dilation Functions.
Proceedings of the IEEE Congress on Evolutionary Computation, 2021

Integration of Multiple scRNA-Seq Datasets on the Autoencoder Latent Space.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

2020
cuProCell: GPU-Accelerated Analysis of Cell Proliferation With Flow Cytometry Data.
IEEE J. Biomed. Health Informatics, 2020

Coupling Mechanistic Approaches and Fuzzy Logic to Model and Simulate Complex Systems.
IEEE Trans. Fuzzy Syst., 2020

Simpful: A User-Friendly Python Library for Fuzzy Logic.
Int. J. Comput. Intell. Syst., 2020

Computational Intelligence for Life Sciences.
Fundam. Informaticae, 2020

Surfing on Fitness Landscapes: A Boost on Optimization by Fourier Surrogate Modeling.
Entropy, 2020

Fuzzy modeling and global optimization to predict novel therapeutic targets in cancer cells.
Bioinform., 2020

On the automatic calibration of fully analogical spiking neuromorphic chips.
Proceedings of the 2020 International Joint Conference on Neural Networks, 2020

Fourier Surrogate Models of Dilated Fitness Landscapes in Systems Biology : or how we learned to torture optimization problems until they confess.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2020

Which random is the best random? A study on sampling methods in Fourier surrogate modeling.
Proceedings of the IEEE Congress on Evolutionary Computation, 2020

2019
ginSODA: massive parallel integration of stiff ODE systems on GPUs.
J. Supercomput., 2019

USE-Net: Incorporating Squeeze-and-Excitation blocks into U-Net for prostate zonal segmentation of multi-institutional MRI datasets.
Neurocomputing, 2019

MedGA: A novel evolutionary method for image enhancement in medical imaging systems.
Expert Syst. Appl., 2019

A novel framework for MR image segmentation and quantification by using MedGA.
Comput. Methods Programs Biomed., 2019

GenHap: a novel computational method based on genetic algorithms for haplotype assembly.
BMC Bioinform., 2019

Modeling cell proliferation in human acute myeloid leukemia xenografts.
Bioinform., 2019

Biochemical parameter estimation vs. benchmark functions: A comparative study of optimization performance and representation design.
Appl. Soft Comput., 2019

HaraliCU: GPU-Powered Haralick Feature Extraction on Medical Images Exploiting the Full Dynamics of Gray-Scale Levels.
Proceedings of the Parallel Computing Technologies, 2019

ProCell: Investigating cell proliferation with Swarm Intelligence.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2019

Dilation Functions in Global Optimization.
Proceedings of the IEEE Congress on Evolutionary Computation, 2019

2018
Fuzzy Self-Tuning PSO: A settings-free algorithm for global optimization.
Swarm Evol. Comput., 2018

Multi-objective optimization to explicitly account for model complexity when learning Bayesian Networks.
CoRR, 2018

GPU-Powered Multi-Swarm Parameter Estimation of Biological Systems: A Master-Slave Approach.
Proceedings of the 26th Euromicro International Conference on Parallel, 2018

High Performance Computing for Haplotyping: Models and Platforms.
Proceedings of the Euro-Par 2018: Parallel Processing Workshops, 2018

GPU Accelerated Analysis of Treg-Teff Cross Regulation in Relapsing-Remitting Multiple Sclerosis.
Proceedings of the Euro-Par 2018: Parallel Processing Workshops, 2018

Efficient and Settings-Free Calibration of Detailed Kinetic Metabolic Models with Enzyme Isoforms Characterization.
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2018

Computational Intelligence for Parameter Estimation of Biochemical Systems.
Proceedings of the 2018 IEEE Congress on Evolutionary Computation, 2018

2017
Gillespie's Stochastic Simulation Algorithm on MIC coprocessors.
J. Supercomput., 2017

Efficient Simulation of Reaction Systems on Graphics Processing Units.
Fundam. Informaticae, 2017

LASSIE: simulating large-scale models of biochemical systems on GPUs.
BMC Bioinform., 2017

GPU-powered model analysis with PySB/cupSODA.
Bioinform., 2017

Graphics processing units in bioinformatics, computational biology and systems biology.
Briefings Bioinform., 2017

Reboot strategies in particle swarm optimization and their impact on parameter estimation of biochemical systems.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2017

Estimation of Kinetic Reaction Constants: Exploiting Reboot Strategies to Improve PSO's Performance.
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2017

2016
GPU-powered Bat Algorithm for the parameter estimation of biochemical kinetic values.
Proceedings of the 2016 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2016

Parallel implementation of efficient search schemes for the inference of cancer progression models.
Proceedings of the 2016 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2016

COSYS: A Computational Infrastructure for Systems Biology.
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2016

GPU-powered and settings-free parameter estimation of biochemical systems.
Proceedings of the IEEE Congress on Evolutionary Computation, 2016

2015
Parallelizing Biochemical Stochastic Simulations: A Comparison of GPUs and Intel Xeon Phi Processors.
Proceedings of the Parallel Computing Technologies - 13th International Conference, PaCT 2015, Petrozavodsk, Russia, August 31, 2015

Proactive Particles in Swarm Optimization: A self-tuning algorithm based on Fuzzy Logic.
Proceedings of the 2015 IEEE International Conference on Fuzzy Systems, 2015

The impact of particles initialization in PSO: Parameter estimation as a case in point.
Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2015

2014
GPU-accelerated simulations of mass-action kinetics models with cupSODA.
J. Supercomput., 2014

Simulation and Analysis of the Blood Coagulation Cascade Accelerated on GPU.
Proceedings of the 22nd Euromicro International Conference on Parallel, 2014

A memetic hybrid method for the Molecular Distance Geometry Problem with incomplete information.
Proceedings of the IEEE Congress on Evolutionary Computation, 2014

2013
GPU-powered Simulation Methodologies for Biological Systems.
Proceedings of the Proceedings Wivace 2013, 2013

In vivo and in silico analysis of PCNA ubiquitylation in the activation of the Post Replication Repair pathway in S. cerevisiae.
BMC Syst. Biol., 2013

cupSODA: A CUDA-Powered Simulator of Mass-Action Kinetics.
Proceedings of the Parallel Computing Technologies - 12th International Conference, 2013

Reverse engineering of kinetic reaction networks by means of Cartesian Genetic Programming and Particle Swarm Optimization.
Proceedings of the IEEE Congress on Evolutionary Computation, 2013

The foundation of Evolutionary Petri Nets.
Proceedings of the International Workshop on Biological Processes & Petri Nets, 2013

2012
The role of feedback control mechanisms on the establishment of oscillatory regimes in the Ras/cAMP/PKA pathway in S. cerevisiae.
EURASIP J. Bioinform. Syst. Biol., 2012

Estimating reaction constants in stochastic biological systems with a multi-swarm PSO running on GPUs.
Proceedings of the Genetic and Evolutionary Computation Conference, 2012

A GPU-Based Multi-swarm PSO Method for Parameter Estimation in Stochastic Biological Systems Exploiting Discrete-Time Target Series.
Proceedings of the Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics, 2012

2011
Modeling Diffusion in a Signal Transduction Pathway: the Use of Virtual Volumes in P Systems.
Int. J. Found. Comput. Sci., 2011

Grid Computing for Sensitivity Analysis of Stochastic Biological Models.
Proceedings of the Parallel Computing Technologies - 11th International Conference, 2011

2010
Computing with energy and chemical reactions.
Nat. Comput., 2010

An Analysis on the Influence of Network Topologies on Local and Global Dynamics of Metapopulation Systems
Proceedings of the Proceedings First Workshop on Applications of Membrane computing, 2010

Modelling Spatial Heterogeneity and Macromolecular Crowding with Membrane Systems.
Proceedings of the Membrane Computing, 2010

BioSimWare: A Software for the Modeling, Simulation and Analysis of Biological Systems.
Proceedings of the Membrane Computing, 2010

2009
(Tissue) P systems with cell polarity.
Math. Struct. Comput. Sci., 2009

A study on the combined interplay between stochastic fluctuations and the number of flagella in bacterial chemotaxis
Proceedings of the Proceedings Second International Workshop on Computational Models for Cell Processes, 2009

A Novel Variant of P Systems for the Modelling and Simulation of Biochemical Systems.
Proceedings of the Membrane Computing, 10th International Workshop, 2009

A Comparison of Genetic Algorithms and Particle Swarm Optimization for Parameter Estimation in Stochastic Biochemical Systems.
Proceedings of the Evolutionary Computation, 2009

A Multi-volume Approach to Stochastic Modeling with Membrane Systems.
Proceedings of the Algorithmic Bioprocesses, 2009

2008
Modelling metapopulations with stochastic membrane systems.
Biosyst., 2008

First Steps Towards a Wet Implementation for t-DPP.
Proceedings of the Membrane Computing - 9th International Workshop, 2008

2007
Cycles and communicating classes in membrane systems and molecular dynamics.
Theor. Comput. Sci., 2007

2006
Tau Leaping Stochastic Simulation Method in P Systems.
Proceedings of the Membrane Computing, 7th International Workshop, 2006

2005
P Systems with Memory.
Proceedings of the Membrane Computing, 6th International Workshop, 2005


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