Dynamic Fuzzy Models

This repository contains a collection of dynamic fuzzy models (DFMs) and related analysis scripts. The aim of this repository is to showcase and share published DFMs, to ensure reproducibility of results and facilitate model improvements. If you wish to have more information about DFMs, their definition, and simulation, please check:
Nobile et al. Fuzzy modeling and global optimization to predict novel therapeutic targets in cancer cells. Bioinformatics, 2020, 36.7: 2181–2188.

More information about the models and analyses contained in this repository can be found in the publications listed below. If you find these models useful for your research, please cite our work as follows.

Models

• Programmed cell death
  • Marco S. Nobile, Giuseppina Votta, Roberta Palorini, Simone Spolaor, Humberto De Vitto, Paolo Cazzaniga, Francesca Ricciardiello, Giancarlo Mauri, Lilia Alberghina, Ferdinando Chiaradonna, Daniela Besozzi.
    Fuzzy modeling and global optimization to predict novel therapeutic targets in cancer cells.
    Bioinformatics, 2020, 36.7: 2181–2188. https://doi.org/10.1093/bioinformatics/btz868
  • Simone Spolaor, Martijn Scheve, Murat Firat, Paolo Cazzaniga, Daniela Besozzi, Marco S. Nobile.
    Screening for combination cancer therapies with dynamic fuzzy modeling and multi-objective optimization.
    Frontiers in Genetics, 2021, 12: 449. https://doi.org/10.3389/fgene.2021.617935

Analyses

• Multi-objective optimization of drug target combinations (a step-by-step guide on how to run the analysis is available here)
  • Simone Spolaor, Martijn Scheve, Murat Firat, Paolo Cazzaniga, Daniela Besozzi, Marco S. Nobile.
    Screening for combination cancer therapies with dynamic fuzzy modeling and multi-objective optimization.
    Frontiers in Genetics, 2021, 12: 449. https://doi.org/10.3389/fgene.2021.617935
  • Simone Spolaor, Daniele M. Papetti, Paolo Cazzaniga, Daniela Besozzi, Marco S. Nobile.
    Identification of Pareto-optimal drug target combinations in cancer cell models. (under review)

Model implementation

The DFMs contained in this repository are implemented by means of Simpful, a user-friendly python library for fuzzy logic.

Further info

Created by Simone Spolaor at the University of Milano-Bicocca.

If you need further information, please write an e-mail at: simone.spolaor@unimib.it.