Molecular mechanics and dynamics of biomolecules using a solvent continuum model. - Federico Fogolari; Gennaro Esposito; Paolo Viglino; Henriette Molinari (J. Comput. Chem., 2001)

Using Secondary Structure Information for Protein Folding in CLP(FD). - Agostino Dovier; Matteo Burato; Federico Fogolari (WFLP, 2002)

Protein Folding in CLP(FD) with Empirical Contact Energies. - Alessandro Dal Palù; Agostino Dovier; Federico Fogolari (CSCLP, 2003)

Amino acid empirical contact energy definitions for fold recognition in the space of contact maps. - Marco Berrera; Henriette Molinari; Federico Fogolari (BMC Bioinform., 2003)

Protein Folding Simulation in CCP. - Alessandro Dal Palù; Agostino Dovier; Federico Fogolari (ICLP, 2004)

Constraint Logic Programming approach to protein structure prediction. - Alessandro Dal Palù; Agostino Dovier; Federico Fogolari (BMC Bioinform., 2004)

A decoy set for the thermostable subdomain from chicken villin headpiece, comparison of different free energy estimators. - Federico Fogolari; Silvio C. E. Tosatto; Giorgio Colombo 001 (BMC Bioinform., 2005)

Agent-based protein structure prediction. - Luca Bortolussi; Agostino Dovier; Federico Fogolari (Multiagent Grid Syst., 2007)

CLP-based protein fragment assembly. - Alessandro Dal Palù; Agostino Dovier; Federico Fogolari; Enrico Pontelli (Theory Pract. Log. Program., 2010)

Exploring Protein Fragment Assembly Using CLP. - Alessandro Dal Palù; Agostino Dovier; Federico Fogolari; Enrico Pontelli (IJCAI, 2011)

Fast structure similarity searches among protein models: efficient clustering of protein fragments. - Federico Fogolari; Alessandra Corazza; Paolo Viglino; Gennaro Esposito (Algorithms Mol. Biol., 2012)

Bluues server: electrostatic properties of wild-type and mutated protein structures. - Ian Walsh; Giovanni Minervini; Alessandra Corazza; Gennaro Esposito; Silvio C. E. Tosatto; Federico Fogolari (Bioinform., 2012)

Bluues: a program for the analysis of the electrostatic properties of proteins based on generalized Born radii. - Federico Fogolari; Alessandra Corazza; Vijaylakshmi Yarra; Anusha Jalaru; Paolo Viglino; Gennaro Esposito (BMC Bioinform., 2012)

Accuracy assessment of the linear Poisson-Boltzmann equation and reparametrization of the OBC generalized Born model for nucleic acids and nucleic acid-protein complexes. - Federico Fogolari; Alessandra Corazza; Gennaro Esposito (J. Comput. Chem., 2015)

Similarity Measures Based on the Overlap of Ranked Genes Are Effective for Comparison and Classification of Microarray Data. - Fabrizio Serra; Chiara Romualdi; Federico Fogolari (J. Comput. Biol., 2016)

PDB2ENTROPY and PDB2TRENT: Conformational and Translational-Rotational Entropy from Molecular Ensembles. - Federico Fogolari; Ornela Maloku; Cedrix Jurgal Dongmo Foumthuim; Alessandra Corazza; Gennaro Esposito (J. Chem. Inf. Model., 2018)

Generalized Born radii computation using linear models and neural networks. - Saida S. Mohamed; Gennaro Esposito; Giuseppe Serra 001; Federico Fogolari (Bioinform., 2020)

Molecular electrostatics and pKa shifts calculations with the Generalized Born model. A tutorial through examples with Bluues2. - Miguel A. Soler; Ozge Ozkilinc; Yamanappa Hunashal; Paolo Giannozzi; Gennaro Esposito; Federico Fogolari (Comput. Phys. Commun., 2023)