Computing with Metabolic Machines. - Claudio Angione; Giovanni Carapezza; Jole Costanza; Pietro Liò; Giuseppe Nicosia (Turing-100, 2012)

Multi-objective Optimisation, Sensitivity and Robustness Analysis in FBA Modelling. - Jole Costanza; Giovanni Carapezza; Claudio Angione; Pietro Liò; Giuseppe Nicosia (CMSB, 2012)

Robust design of microbial strains. - Jole Costanza; Giovanni Carapezza; Claudio Angione; Pietro Liò; Giuseppe Nicosia (Bioinform., 2012)

How to Compute with Metabolism in Bacteria? - Claudio Angione; Pietro Liò; Giuseppe Nicosia (ERCIM News, 2012)

Pareto epsilon-dominance and identifiable solutions for BioCAD modeling. - Claudio Angione; Jole Costanza; Giovanni Carapezza; Pietro Liò; Giuseppe Nicosia (DAC, 2013)

Multi objective design for bacterial communication networks. - Claudio Angione; Giovanni Carapezza; Jole Costanza; Pietro Liò; Giuseppe Nicosia (ICC Workshops, 2013)

Bose-Einstein condensation in satisfiability problems. - Claudio Angione; Annalisa Occhipinti; Giovanni Stracquadanio; Giuseppe Nicosia (Eur. J. Oper. Res., 2013)

Design and strain selection criteria for bacterial communication networks. - Claudio Angione; Giovanni Carapezza; Jole Costanza; Pietro Liò; Giuseppe Nicosia (Nano Commun. Networks, 2013)

Pareto Optimality in Organelle Energy Metabolism Analysis. - Claudio Angione; Giovanni Carapezza; Jole Costanza; Pietro Liò; Giuseppe Nicosia (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

Satisfiability by Maxwell-Boltzmann and Bose-Einstein Statistical Distributions. - Claudio Angione; Annalisa Occhipinti; Giuseppe Nicosia (ACM J. Exp. Algorithmics, 2014)

Bioinformatics Challenges and Potentialities in Studying Extreme Environments. - Claudio Angione; Pietro Liò; Sandra Pucciarelli; Basarbatu Can; Maxwell Conway; Marina Lotti; Habib Bokhari; Alessio Mancini; Ugur Sezerman; Andrea Telatin (CIBB, 2015)

Analysis and design of molecular machines. - Claudio Angione; Jole Costanza; Giovanni Carapezza; Pietro Liò; Giuseppe Nicosia (Theor. Comput. Sci., 2015)

Computational methods for multi-omic models of cell metabolism and their importance for theoretical computer science. - Claudio Angione (2015)

Multiplex methods provide effective integration of multi-omic data in genome-scale models. - Claudio Angione; Maxwell Conway; Pietro Liò (BMC Bioinform., 2016)

Multi-omic Data Integration Elucidates Synechococcus Adaptation Mechanisms to Fluctuations in Light Intensity and Salinity. - Supreeta Vijayakumar; Claudio Angione (IWBBIO (1), 2017)

A Data- and Model-Driven Analysis Reveals the Multi-omic Landscape of Ageing. - Elisabeth Yaneske; Claudio Angione (IWBBIO (1), 2017)

Making life difficult for Clostridium difficile: augmenting the pathogen's metabolic model with transcriptomic and codon usage data for better therapeutic target characterization. - Sara Saheb Kashaf; Claudio Angione; Pietro Liò (BMC Syst. Biol., 2017)

Seeing the wood for the trees: a forest of methods for optimization and omic-network integration in metabolic modelling. - Supreeta Vijayakumar; Maxwell Conway; Pietro Lió; Claudio Angione (Briefings Bioinform., 2018)

Integrating splice-isoform expression into genome-scale models characterizes breast cancer metabolism. - Claudio Angione (Bioinform., 2018)

The poly-omics of ageing through individual-based metabolic modelling. - Elisabeth Yaneske; Claudio Angione (BMC Bioinform., 2018)

Large-scale Genetic Exploration of Genome-wide Models: an Application to Human Cancer Metabolism. - Youssef Hamadi; Claudio Angione; Hillel Kugler; Christoph M. Wintersteiger; Boyan Yordanov (IEEE DataPort, 2018)

Social dynamics modeling of chrono-nutrition. - Alessandro Di Stefano; Marialisa Scatà; Supreeta Vijayakumar; Claudio Angione; Aurelio La Corte; Pietro Liò (PLoS Comput. Biol., 2019)

Machine and deep learning meet genome-scale metabolic modeling. - Guido Zampieri; Supreeta Vijayakumar; Elisabeth Yaneske; Claudio Angione (PLoS Comput. Biol., 2019)

Situating Agent-Based Modelling in Population Health Research. - Eric Silverman; Umberto Gostoli; Stefano Picascia; Jonatan Almagor; Mark McCann; Richard J. Shaw; Claudio Angione (CoRR, 2020)

Using Machine Learning to Emulate Agent-Based Simulations. - Claudio Angione; Eric Silverman; Elisabeth Yaneske (CoRR, 2020)

Developments in AI and Machine Learning for Neuroimaging. - Shane O'Sullivan; Fleur Jeanquartier; Claire Jean-Quartier; Andreas Holzinger; Dan Shiebler; Pradip Moon; Claudio Angione (AI and ML for Digital Pathology, 2020)

Multimodal regularized linear models with flux balance analysis for mechanistic integration of omics data. - Giuseppe Magazzù; Guido Zampieri; Claudio Angione (Bioinform., 2021)

Discovering Essential Multiple Gene Effects Through Large Scale Optimization: An Application to Human Cancer Metabolism. - Annalisa Occhipinti; Youssef Hamadi; Hillel Kugler; Christoph M. Wintersteiger; Boyan Yordanov; Claudio Angione (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Modeling Customer Experience in a Contact Center through Process Log Mining. - Teng Fu; Guido Zampieri; David Hodgson; Claudio Angione; Yifeng Zeng (ACM Trans. Intell. Syst. Technol., 2021)

Integrating genome-scale metabolic modelling and transfer learning for human gene regulatory network reconstruction. - Gianvito Pio; Paolo Mignone; Giuseppe Magazzù; Guido Zampieri; Michelangelo Ceci; Claudio Angione (Bioinform., 2022)

Clinical stratification improves the diagnostic accuracy of small omics datasets within machine learning and genome-scale metabolic modelling methods. - Giuseppe Magazzù; Guido Zampieri; Claudio Angione (Comput. Biol. Medicine, 2022)

A pipeline and comparative study of 12 machine learning models for text classification. - Annalisa Occhipinti; Louis Rogers; Claudio Angione (Expert Syst. Appl., 2022)

Ten quick tips for avoiding pitfalls in multi-omics data integration analyses. - Davide Chicco; Fabio Cumbo; Claudio Angione (PLoS Comput. Biol., 2023)

Complete Security and Privacy for AI Inference in Decentralized Systems. - Hongyang Zhang; Yue Zhao; Claudio Angione; Harry Yang; James P. Buban; Ahmad Farhan; Fielding Johnston; Patrick Colangelo (CoRR, 2024)

Model Agnostic Hybrid Sharding For Heterogeneous Distributed Inference. - Claudio Angione; Yue Zhao; Harry Yang; Ahmad Farhan; Fielding Johnston; James P. Buban; Patrick Colangelo (CoRR, 2024)

Meta-Learning for Speeding Up Large Model Inference in Decentralized Environments. - Yuzhe Yang 006; Yipeng Du 001; Ahmad Farhan; Claudio Angione; Yue Zhao; Harry Yang; Fielding Johnston; James P. Buban; Patrick Colangelo (CoRR, 2024)

Data-driven analysis of crustal and subduction seismic environments using interpretation of deep learning-based generalized ground motion models. - Jawad Fayaz; Rodrigo Astroza; Claudio Angione; Miguel Medalla (Expert Syst. Appl., 2024)

Enhancing deep learning for demand forecasting to address large data gaps. - Chirine Riachy; Mengda He; Sina Joneidy; Shengchao Qin; Tim Payne; Graeme Boulton; Annalisa Occhipinti; Claudio Angione (Expert Syst. Appl., 2025)

Encrypted Large Model Inference: The Equivariant Encryption Paradigm. - James P. Buban; Hongyang Zhang; Claudio Angione; Harry Yang; Ahmad Farhan; Seyfal Sultanov; Michael Du; Xuran Ma; Zihao Wang; Yue Zhao; Arria Owlia; Fielding Johnston; et al. (CoRR, 2025)

Meta-Learning for Speeding Up Large Model Inference in Decentralized Environments. - Yipeng Du 001; Zihao Wang; Ahmad Farhan; Claudio Angione; Harry Yang; Fielding Johnston; James P. Buban; Patrick Colangelo; Yue Zhao; Yuzhe Yang 006 (CoRR, 2025)