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Statistical and Physics-Based Interpretation of AI and Machine Learning Methods for Biomedical Data

A special issue of Entropy (ISSN 1099-4300). This special issue belongs to the section "Entropy and Biology".

Deadline for manuscript submissions: 28 February 2027 | Viewed by 1576

Special Issue Editor


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Guest Editor
Department of Experimental, Diagnostic and Specialty Medicine–DIMES, Alma Mater Studiorum-Università di Bologna, Bologna, Italy
Interests: artificial intelligence; machine learning; multiomic data; complex systems; neural networks; biophysics
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

We are assisting in the unprecedented flourishing of new AI and Machine Learning methods, which are being applied in the majority of research fields. In particular, the Biomedical field is experimenting with a huge increase in such applications in a variety of sectors, such as multi-omics science, medical imaging (including digital pathology), clinical practice, and therapy optimization for health system organizations.

The methods that are being used cover all AI techniques, such as supervised, unsupervised, and reinforcement learning. Entropy serves as a bridge connecting AI black-box models to biophysical systems, demonstrating dual significance in both algorithmic optimization and interpretability enhancement. In supervised learning, entropy-driven techniques like cross-entropy loss functions and information gain metrics refine classification accuracy while addressing biological data imbalances. Unsupervised learning leverages entropy constraints in clustering purity assessments and maximum entropy principles for synthetic medical data generation, ensuring statistical fidelity without compromising privacy. Reinforcement learning frameworks integrate entropy regularization to balance exploration–exploitation trade-offs.

A very important issue in all Biomedical applications is the transparency of the methods used, as stated in the EU AI act. This can be addressed by so-called Explainable AI (XAI), but a further step toward a more complete understanding of these techniques can be their statistical and physics-based interpretation of the learning process. Some paradigmatic examples can be the generation of synthetic data, Neural Differential Equations, clustering, and Graph Neural Networks. The integration of entropy principles bridges these AI methods and statistical physics.

This Special Issue aims to collect contributions related to AI and Machine Learning methods applied to Biomedicine with a physics-based and statistical interpretation. In particular, analyses of Biomedical data based on these methods falls within the scope of this Special Issue.

Prof. Dr. Gastone C. Castellani
Guest Editor

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Keywords

  • statistical interpretation of learning rules
  • diffusion processes in AI
  • complex networks
  • AI methods for biomedicine
  • integration of multi-omic data
  • AI for medical imaging
  • biophysics-inspired learning rules

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Published Papers (2 papers)

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Research

15 pages, 2006 KB  
Article
Towards Accurate Breslow Measurements: Mitigating Issues in Histopathological Imaging
by Nico Curti, Lorenzo Dall’Olio, Giulia Veronesi, Giulia Querzoli, Federico Venturi, Azzurra Sisi, Sara Peluso, Gastone Castellani and Emi Dika
Entropy 2026, 28(6), 643; https://doi.org/10.3390/e28060643 - 8 Jun 2026
Abstract
Breslow thickness is a key prognostic parameter in the staging of cutaneous melanoma, but its manual measurement is affected by operator dependency and the complex morphology of the epidermis. Identifying both the deepest melanocyte and the correct perpendicular path to the epidermal surface [...] Read more.
Breslow thickness is a key prognostic parameter in the staging of cutaneous melanoma, but its manual measurement is affected by operator dependency and the complex morphology of the epidermis. Identifying both the deepest melanocyte and the correct perpendicular path to the epidermal surface can be challenging, especially in highly irregular tissues. This study investigates a more robust estimation of Breslow thickness through the development of a semi-automated Computer Vision–based software. Inter-operator variability was assessed by comparing measurements performed by seven histopathologists on 40 Whole Slide Images of non-ulcerated pT1a melanomas with Breslow thickness below 0.8 mm. The agreement between human measurements and AI results was evaluated. Significant variability in the orientation of the measurement segments was observed, highlighting the difficulty for human operators in identifying the correct perpendicular direction. A linear relationship was found between angular variance and variance in Breslow thickness values, linking epidermal irregularity to increased measurement uncertainty. Overall, statistically significant differences were observed between the AI system and five of the seven operators, indicating a general tendency among experts to overestimate Breslow thickness. Full article
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20 pages, 1577 KB  
Article
Unraveling the Network Signatures of Oncogenicity in Virus–Human Protein–Protein Interactions
by Francesco Zambelli, Vera Pancaldi and Manlio De Domenico
Entropy 2025, 27(12), 1248; https://doi.org/10.3390/e27121248 - 11 Dec 2025
Viewed by 879
Abstract
Background: Climate change, urbanization, and global mobility increase the risk of emerging infectious diseases with pandemic potential. There is a need for rapid methods that can assess their long-term effects on human health. In silico approaches are particularly suited to study processes that [...] Read more.
Background: Climate change, urbanization, and global mobility increase the risk of emerging infectious diseases with pandemic potential. There is a need for rapid methods that can assess their long-term effects on human health. In silico approaches are particularly suited to study processes that may manifest years later, under the assumption that perturbed biomolecular interactions underlie these outcomes. Here we focus on viral oncogenicity—the ability of viruses to increase cancer risk—which accounts for about 15% of global cancer cases. Methods: We characterize viruses through multilayer representations of protein–protein interaction (PPI) networks reconstructed from the human interactome. Statistical analyses of topological features, combined with interpretable machine learning models, are used to distinguish oncogenic from non-oncogenic viruses and to identify proteins with potential central role in these processes. Results: Our analysis reveals clear statistical differences between the network properties of oncogenic and non-oncogenic viruses. Furthermore, the machine learning approach enables classification of virus–host interaction networks and identification of relevant subsets of proteins associated with oncogenesis. Functional enrichment analysis highlights mechanisms related to viral oncogenicity, including chromatin structure and other processes linked to cancer development. Conclusions: This framework enables virus classification and highlights mechanisms underlying viral oncogenicity, providing a foundation for investigating long-term health effects of emerging pathogens. Full article
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