Generalized Pattern Search and Mesh Adaptive Direct Search Algorithms for Protein Structure Prediction. - Giuseppe Nicosia; Giovanni Stracquadanio (WABI, 2007)

An Advanced Clonal Selection Algorithm with Ad-Hoc Network-Based Hypermutation Operators for Synthesis of Topology and Sizing of Analog Electrical Circuits. - Angelo Ciccazzo; Piero Conca; Giuseppe Nicosia; Giovanni Stracquadanio (ICARIS, 2008)

Nominal-Yield-Area Tradeoff in Automatic Synthesis of Analog Circuits: A Genetic Programming Approach Using Immune-Inspired Operators. - Piero Conca; Giuseppe Nicosia; Giovanni Stracquadanio; Jon Timmis (AHS, 2009)

A Design-for-Yield Algorithm to Assess and Improve the Structural and Energetic Robustness of Proteins and Drugs. - Giuseppe Nicosia; Giovanni Stracquadanio (SEA, 2009)

Analysis and Optimization of C3 Photosynthetic Carbon Metabolism. - Giovanni Stracquadanio; Renato Umeton; Alessio Papini; Pietro Liò; Giuseppe Nicosia (BIBE, 2010)

Entropic divergence for population based optimization algorithms. - Vincenzo Cutello; Giuseppe Nicosia; Mario Pavone; Giovanni Stracquadanio (IEEE Congress on Evolutionary Computation, 2010)

Effective design of semiconductor devices using evolutionary-based derivative free optimization. - Giovanni Stracquadanio; Concetta Drago; Vittorio Romano; Giuseppe Nicosia (IEEE Congress on Evolutionary Computation, 2010)

Multi-objective optimization of doping profile in semiconductor design. - Giovanni Stracquadanio; Concetta Drago; Vittorio Romano; Giuseppe Nicosia (GECCO, 2010)

An Information-Theoretic Approach for Clonal Selection Algorithms. - Vincenzo Cutello; Giuseppe Nicosia; Mario Pavone; Giovanni Stracquadanio (ICARIS, 2010)

An Immunological Algorithm for Doping Profile Optimization in Semiconductors Design. - Giovanni Stracquadanio; Concetta Drago; Vittorio Romano; Giuseppe Nicosia (ICARIS, 2010)

Design of robust metabolic pathways. - Renato Umeton; Giovanni Stracquadanio; Anilkumar Sorathiya; Pietro Liò; Alessio Papini; Giuseppe Nicosia (DAC, 2011)

Large Scale Agent-Based Modeling of the Humoral and Cellular Immune Response. - Giovanni Stracquadanio; Renato Umeton; Jole Costanza; Viviana Annibali; Rosella Mechelli; Mario Pavone; Luca Zammataro; Giuseppe Nicosia (ICARIS, 2011)

Design of Robust Space Trajectories. - Giovanni Stracquadanio; Angelo La Ferla; Matteo De Felice; Giuseppe Nicosia (SGAI Conf., 2011)

Computational energy-based redesign of robust proteins. - Giovanni Stracquadanio; Giuseppe Nicosia (Comput. Chem. Eng., 2011)

A Mesh Adaptive Basin Hopping Method for the Design of Circular Antenna Arrays. - Giovanni Stracquadanio; Elisa Pappalardo; Panos M. Pardalos (J. Optim. Theory Appl., 2012)

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

Semiconductor device design using the BiMADS algorithm. - Giovanni Stracquadanio; Vittorio Romano; Giuseppe Nicosia (J. Comput. Phys., 2013)

Automatic Tuning of Algorithms Through Sensitivity Minimization. - Piero Conca; Giovanni Stracquadanio; Giuseppe Nicosia (MOD, 2015)

BioPartsDB: a synthetic biology workflow web-application for education and research. - Giovanni Stracquadanio; Kun Yang 003; Jef D. Boeke; Joel S. Bader (Bioinform., 2016)

BioPartsBuilder: a synthetic biology tool for combinatorial assembly of biological parts. - Kun Yang 003; Giovanni Stracquadanio; Jingchuan Luo; Jef D. Boeke; Joel S. Bader (Bioinform., 2016)

Stochastic Methods for Global Optimization and Problem Solving. - Giovanni Stracquadanio; Panos M. Pardalos (Encyclopedia of Bioinformatics and Computational Biology (1), 2019)

PyGNA: a unified framework for geneset network analysis. - Viola Fanfani; Fabio Cassano; Giovanni Stracquadanio (BMC Bioinform., 2020)

Introduction to the Special Issue on BioFoundries and Cloud Laboratories. - Douglas Densmore; Nathan J. Hillson; Eric Klavins; Chris J. Myers; Jean Peccoud; Giovanni Stracquadanio (ACM J. Emerg. Technol. Comput. Syst., 2023)

GNN-Suite: a Graph Neural Network Benchmarking Framework for Biomedical Informatics. - Sebestyén Kamp; Giovanni Stracquadanio; T. Ian Simpson (CoRR, 2025)