Claudia Andreini

18 papers B 1Journal 17
YearRankTypeTitle / Venue / Authors
2026 J jnl
Master of Metals2: a graph neural network based architecture for the prediction of zinc binding sites in protein structures.
Briefings Bioinform.
Vincenzo Laveglia, Cosimo Ciofalo, Enrico Morelli, Claudia Andreini, Antonio Rosato
2025 J jnl
Benchmarking Zinc-Binding Site Predictors: A Comparative Analysis of Structure-Based Approaches.
J. Chem. Inf. Model.
Cosimo Ciofalo, Vincenzo Laveglia, Claudia Andreini, Antonio Rosato
2025 J jnl
Correction to "Benchmarking Zinc-Binding Site Predictors: A Comparative Analysis of Structure-Based Approaches".
J. Chem. Inf. Model.
Cosimo Ciofalo, Vincenzo Laveglia, Claudia Andreini, Antonio Rosato
2023 J jnl
Hunting down zinc(II)-binding sites in proteins with distance matrices.
Bioinform.
Vincenzo Laveglia, Milana Bazayeva, Claudia Andreini, Antonio Rosato
2022 J jnl
Learning to Identify Physiological and Adventitious Metal-Binding Sites in the Three-Dimensional Structures of Proteins by Following the Hints of a Deep Neural Network.
J. Chem. Inf. Model.
Vincenzo Laveglia, Andrea Giachetti, Davide Sala, Claudia Andreini, Antonio Rosato
2022 J jnl
PDBe-KB: collaboratively defining the biological context of structural data.
Nucleic Acids Res.
Mihaly Varadi, Stephen Anyango, David R. Armstrong, John M. Berrisford, Preeti Choudhary, Mandar S. Deshpande, Nurul Nadzirin, Sreenath Nair, Lukás Pravda, Ahsan Tanweer, Bissan Al-Lazikani, Claudia Andreini, Geoffrey J. Barton, David Bednar, Karel Berka, Tom L. Blundell, Kelly Brock, José María Carazo, Jirí Damborský, Alessia David, Sucharita Dey, Roland L. Dunbrack Jr., Juan Fernández-Recio, Franca Fraternali, Toby J. Gibson, Manuela Helmer-Citterich, David Hoksza, Thomas A. Hopf, David Jakubec, Natarajan Kannan, Radoslav Krivák, Manjeet Kumar, Emmanuel D. Levy, Nir London, José Ramón Macías, Mallur Srivatsan Madhusudhan, Debora S. Marks, Lennart Martens, Stuart A McGowan, Jake E. McGreig, Vivek Modi, R. Gonzalo Parra, Gerardo Pepe, Damiano Piovesan, Jaime Prilusky, Valeria Putignano, Leandro G. Radusky, Pathmanaban Ramasamy, Atilio O. Rausch, Nathalie Reuter, Luis A. Rodriguez, Nathan J. Rollins, Antonio Rosato, Pawel Rubach, Luis Serrano, Gulzar Singh, Petr Skoda, Carlos Oscar Sánchez Sorzano, Jan Stourac, Joanna I. Sulkowska, Radka Svobodová Vareková, Natalia Tichshenko, Silvio C. E. Tosatto, Wim F. Vranken, Mark N. Wass, Dandan Xue, Daniel Zaidman, Janet M. Thornton, Michael J. E. Sternberg, Christine A. Orengo, Sameer Velankar
2019 J jnl
Upgrading and Validation of the AMBER Force Field for Histidine and Cysteine Zinc(II)-Binding Residues in Sites with Four Protein Ligands.
J. Chem. Inf. Model.
Marina Macchiagodena, Marco Pagliai, Claudia Andreini, Antonio Rosato, Piero Procacci
2018 J jnl
MetalPDB in 2018: a database of metal sites in biological macromolecular structures.
Nucleic Acids Res.
Valeria Putignano, Antonio Rosato, Lucia Banci, Claudia Andreini
2016 J jnl
MetalPredator: a web server to predict iron-sulfur cluster binding proteomes.
Bioinform.
Yana Valasatava, Antonio Rosato, Lucia Banci, Claudia Andreini
2013 J jnl
MetalPDB: a database of metal sites in biological macromolecular structures.
Nucleic Acids Res.
Claudia Andreini, Gabriele Cavallaro, Serena Lorenzini, Antonio Rosato
2013 J jnl
MetalS
J. Chem. Inf. Model.
Claudia Andreini, Gabriele Cavallaro, Antonio Rosato, Yana Valasatava
2012 J jnl
FindGeo: a tool for determining metal coordination geometry.
Bioinform.
Claudia Andreini, Gabriele Cavallaro, Serena Lorenzini
2012 J jnl
MACiE: exploring the diversity of biochemical reactions.
Nucleic Acids Res.
Gemma L. Holliday, Claudia Andreini, Julia D. Fischer, Syed Asad Rahman, Daniel E. Almonacid, Sophie T. Williams, William R. Pearson
2011 J jnl
A Simple Protocol for the Comparative Analysis of the Structure and Occurrence of Biochemical Pathways Across Superkingdoms.
J. Chem. Inf. Model.
Claudia Andreini, Ivano Bertini, Gabriele Cavallaro, Leonardo Decaria, Antonio Rosato
2009 J jnl
Metal-MACiE: a database of metals involved in biological catalysis.
Bioinform.
Claudia Andreini, Ivano Bertini, Gabriele Cavallaro, Gemma L. Holliday, Janet M. Thornton
2007 J jnl
Predicting zinc binding at the proteome level.
BMC Bioinform.
Andrea Passerini, Claudia Andreini, Sauro Menchetti, Antonio Rosato, Paolo Frasconi
2006 B conf
Improving Prediction of Zinc Binding Sites by Modeling the Linkage Between Residues Close in Sequence.
RECOMB
Sauro Menchetti, Andrea Passerini, Paolo Frasconi, Claudia Andreini, Antonio Rosato
2004 J jnl
A hint to search for metalloproteins in gene banks.
Bioinform.
Claudia Andreini, Ivano Bertini, Antonio Rosato