Damiano Piovesan

According to our database, Damiano Piovesan authored at least 44 papers between 2011 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

Best practices for the manual curation of intrinsically disordered proteins in DisProt.

Federica Quaglia, Anastasia Chasapi, Maria Victoria Nugnes, Maria Cristina Aspromonte, Emanuela Leonardi, Damiano Piovesan, Silvio C. E. Tosatto

Database J. Biol. Databases Curation, January, 2024

2023

CAID prediction portal: a comprehensive service for predicting intrinsic disorder and binding regions in proteins.

Alessio Del Conte, Adel Bouhraoua, Mahta Mehdiabadi, Damiano Clementel, Alexander Miguel Monzon, Alex S. Holehouse, Daniel A. Griffith, Ryan J. Emenecker, Ashwini Patil, Ronesh Sharma, Tatsuhiko Tsunoda, Alok Sharma, Yi Jun Tang, Bin Liu, Claudio Mirabello, Björn Wallner, Burkhard Rost, Dagmar Ilzhöfer, Maria Littmann, Michael Heinzinger, Lea I M. Krautheimer, Michael Bernhofer, Liam J. McGuffin, Isabelle Callebaut, Tristan Bitard Feildel, Jian Liu, Jianlin Cheng, Zhiye Guo, Jinbo Xu, Sheng Wang, Nawar Malhis, Jörg Gsponer, Chol-Song Kim, Kun-Sop Han, Myong-Chol Ma, Lukasz A. Kurgan, Sina Ghadermarzi, Akila Katuwawala, Bi Zhao, Zhenling Peng, Zhonghua Wu, Gang Hu, Kui Wang, Md. Tamjidul Hoque, Md Wasi Ul Kabir, Michele Vendruscolo, Pietro Sormanni, Min Li, Fuhao Zhang, Pengzhen Jia, Yida Wang, Michail Yu. Lobanov, Oxana V. Galzitskaya, Wim F. Vranken, Adrián Díaz, Thomas Litfin, Yaoqi Zhou, Jack Hanson, Kuldip K. Paliwal, Zsuzsanna Dosztányi, Gábor Erdös, Silvio C. E. Tosatto, Damiano Piovesan

Nucleic Acids Res., July, 2023

RING-PyMOL: residue interaction networks of structural ensembles and molecular dynamics.

Alessio Del Conte, Alexander Miguel Monzon, Damiano Clementel, Giorgia F. Camagni, Giovanni Minervini, Silvio C. E. Tosatto, Damiano Piovesan

Bioinform., May, 2023

MobiDB: 10 years of intrinsically disordered proteins.

Damiano Piovesan, Alessio Del Conte, Damiano Clementel, Alexander Miguel Monzon, Martina Bevilacqua, Maria Cristina Aspromonte, Javier Iserte, Fernando E. Orti, Cristina Marino Buslje, Silvio C. E. Tosatto

Nucleic Acids Res., January, 2023

CAFA-evaluator: A Python Tool for Benchmarking Ontological Classification Methods.

Damiano Piovesan, Davide Zago, Parnal Joshi, M. Clara De Paolis Kaluza, Alexander Miguel Monzon, Walter Reade, Iddo Friedberg, Predrag Radivojac, Silvio C. E. Tosatto

CoRR, 2023

2022

PDBe-KB: collaboratively defining the biological context of structural data.

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

Nucleic Acids Res., 2022

DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation.

Federica Quaglia, Bálint Mészáros, Edoardo Salladini, András Hatos, Rita Pancsa, Lucía B. Chemes, Mátyás Pajkos, Tamas Lazar, Samuel Peña-Díaz, Jaime Santos, Veronika Ács, Nazanin Farahi, Erzsébet Fichó, Maria Cristina Aspromonte, Claudio Bassot, Anastasia Chasapi, Norman E. Davey, Radoslav Davidovic, Laszlo Dobson, Arne Elofsson, Gábor Erdös, Pascale Gaudet, Michelle G. Giglio, Juliana Glavina, Javier Iserte, Valentín Iglesias, Zsófia L. Kálmán, Matteo Lambrughi, Emanuela Leonardi, Sonia Longhi, Sandra Macedo-Ribeiro, Emiliano Maiani, Julia Marchetti, Cristina Marino Buslje, Attila Meszaros, Alexander Miguel Monzon, Giovanni Minervini, Suvarna Nadendla, Juliet F. Nilsson, Marián Novotný, Christos A. Ouzounis, Nicolas Palopoli, Elena Papaleo, Pedro J. Barbosa Pereira, Gabriele Pozzati, Vasilis J. Promponas, Jordi Pujols, Alma Carolina Sanchez Rocha, Martin Salas, Luciana Rodriguez Sawicki, Éva Schád, Aditi Shenoy, Tamás Szaniszló, Konstantinos D. Tsirigos, Nevena Veljkovic, Gustavo D. Parisi, Salvador Ventura, Zsuzsanna Dosztányi, Peter Tompa, Silvio C. E. Tosatto, Damiano Piovesan

Nucleic Acids Res., 2022

FuzDB: a new phase in understanding fuzzy interactions.

András Hatos, Alexander Miguel Monzon, Silvio C. E. Tosatto, Damiano Piovesan, Mónika Fuxreiter

Nucleic Acids Res., 2022

RING 3.0: fast generation of probabilistic residue interaction networks from structural ensembles.

Damiano Clementel, Alessio Del Conte, Alexander Miguel Monzon, Giorgia F. Camagni, Giovanni Minervini, Damiano Piovesan, Silvio C. E. Tosatto

Nucleic Acids Res., 2022

ProSeqViewer: an interactive, responsive and efficient TypeScript library for visualization of sequences and alignments in web applications.

Martina Bevilacqua, Lisanna Paladin, Silvio C. E. Tosatto, Damiano Piovesan

Bioinform., 2022

2021

MobiDB: intrinsically disordered proteins in 2021.

Damiano Piovesan, Marco Necci, Nahuel Escobedo, Alexander Miguel Monzon, András Hatos, Ivan Micetic, Federica Quaglia, Lisanna Paladin, Pathmanaban Ramasamy, Zsuzsanna Dosztányi, Wim F. Vranken, Norman E. Davey, Gustavo D. Parisi, Mónika Fuxreiter, Silvio C. E. Tosatto

Nucleic Acids Res., 2021

RepeatsDB in 2021: improved data and extended classification for protein tandem repeat structures.

Lisanna Paladin, Martina Bevilacqua, Sara Errigo, Damiano Piovesan, Ivan Micetic, Marco Necci, Alexander Miguel Monzon, Maria Laura Fabre, José Luis López, Juliet F. Nilsson, Javier Ríos, Pablo Lorenzano Menna, Maia Cabrera, Martin Gonzalez Buitron, Mariane Gonçalves Kulik, Sebastian Fernandez Alberti, María Silvina Fornasari, Gustavo D. Parisi, Antonio Lagares, Layla Hirsh, Miguel A. Andrade-Navarro, Andrey V. Kajava, Silvio C. E. Tosatto

Nucleic Acids Res., 2021

MobiDB-lite 3.0: fast consensus annotation of intrinsic disorder flavors in proteins.

Marco Necci, Damiano Piovesan, Damiano Clementel, Zsuzsanna Dosztányi, Silvio C. E. Tosatto

Bioinform., 2021

APICURON: a database to credit and acknowledge the work of biocurators.

András Hatos, Federica Quaglia, Damiano Piovesan, Silvio C. E. Tosatto

Database J. Biol. Databases Curation, 2021

2020

Assessing predictors for new post translational modification sites: A case study on hydroxylation.

Damiano Piovesan, András Hatos, Giovanni Minervini, Federica Quaglia, Alexander Miguel Monzon, Silvio C. E. Tosatto

PLoS Comput. Biol., 2020

PlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins.

Patryk Jarnot, Joanna Ziemska-Legiecka, Laszlo Dobson, Matthew Merski, Pablo Mier, Miguel A. Andrade-Navarro, John M. Hancock, Zsuzsanna Dosztányi, Lisanna Paladin, Marco Necci, Damiano Piovesan, Silvio C. E. Tosatto, Vasilis J. Promponas, Marcin Grynberg, Aleksandra Gruca

Nucleic Acids Res., 2020

DisProt: intrinsic protein disorder annotation in 2020.

András Hatos, Borbála Hajdu-Soltész, Alexander Miguel Monzon, Nicolas Palopoli, Lucía Álvarez, Burcu Aykaç Fas, Claudio Bassot, Guillermo I. Benítez, Martina Bevilacqua, Anastasia Chasapi, Lucía B. Chemes, Norman E. Davey, Radoslav Davidovic, A. Keith Dunker, Arne Elofsson, Julien Gobeill, Nicolás S. González Foutel, Govindarajan Sudha, Mainak Guharoy, Tamás Horváth, Valentin Iglesias, Andrey V. Kajava, Orsolya P. Kovács, John Lamb, Matteo Lambrughi, Tamas Lazar, Jeremy Y. Leclercq, Emanuela Leonardi, Sandra Macedo-Ribeiro, Mauricio Macossay-Castillo, Emiliano Maiani, José A. Manso, Cristina Marino Buslje, Elizabeth Martínez-Pérez, Bálint Mészáros, Ivan Micetic, Giovanni Minervini, Nikoletta Murvai, Marco Necci, Christos A. Ouzounis, Mátyás Pajkos, Lisanna Paladin, Rita Pancsa, Elena Papaleo, Gustavo D. Parisi, Emilie Pasche, Pedro J. Barbosa Pereira, Vasilis J. Promponas, Jordi Pujols, Federica Quaglia, Patrick Ruch, Marco Salvatore, Éva Schád, Beáta Szabó, Tamás Szaniszló, Stella Tamana, Ágnes Tantos, Nevena Veljkovic, Salvador Ventura, Wim F. Vranken, Zsuzsanna Dosztányi, Peter Tompa, Silvio C. E. Tosatto, Damiano Piovesan

Nucleic Acids Res., 2020

The Feature-Viewer: a visualization tool for positional annotations on a sequence.

Lisanna Paladin, Mathieu Schaeffer, Pascale Gaudet, Monique Zahn-Zabal, Pierre-André Michel, Damiano Piovesan, Silvio C. E. Tosatto, Amos Bairoch

Bioinform., 2020

2019

INGA 2.0: improving protein function prediction for the dark proteome.

Damiano Piovesan, Silvio C. E. Tosatto

Nucleic Acids Res., 2019

The Pfam protein families database in 2019.

Sara El-Gebali, Jaina Mistry, Alex Bateman, Sean R. Eddy, Aurelien Luciani, Simon C. Potter, Matloob Qureshi, Lorna J. Richardson, Gustavo A. Salazar, Alfredo Smart, Erik L. L. Sonnhammer, Layla Hirsh, Lisanna Paladin, Damiano Piovesan, Silvio C. E. Tosatto, Robert D. Finn

Nucleic Acids Res., 2019

2018

MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins.

Damiano Piovesan, Francesco Tabaro, Lisanna Paladin, Marco Necci, Ivan Micetic, Carlo Camilloni, Norman E. Davey, Zsuzsanna Dosztányi, Bálint Mészáros, Alexander Miguel Monzon, Gustavo D. Parisi, Éva Schád, Pietro Sormanni, Peter Tompa, Michele Vendruscolo, Wim F. Vranken, Silvio C. E. Tosatto

Nucleic Acids Res., 2018

RepeatsDB-lite: a web server for unit annotation of tandem repeat proteins.

Layla Hirsh, Lisanna Paladin, Damiano Piovesan, Silvio C. E. Tosatto

Nucleic Acids Res., 2018

Mobi 2.0: an improved method to define intrinsic disorder, mobility and linear binding regions in protein structures.

Damiano Piovesan, Silvio C. E. Tosatto

Bioinform., 2018

A comprehensive assessment of long intrinsic protein disorder from the DisProt database.

Marco Necci, Damiano Piovesan, Zsuzsanna Dosztányi, Peter Tompa, Silvio C. E. Tosatto

Bioinform., 2018

Where differences resemble: sequence-feature analysis in curated databases of intrinsically disordered proteins.

Marco Necci, Damiano Piovesan, Silvio C. E. Tosatto

Database J. Biol. Databases Curation, 2018

PhytoTypeDB: a database of plant protein inter-cultivar variability and function.

Marco Necci, Damiano Piovesan, Diego Micheletti, Lisanna Paladin, Alessandro Cestaro, Silvio C. E. Tosatto

Database J. Biol. Databases Curation, 2018

2017

DisProt 7.0: a major update of the database of disordered proteins.

Damiano Piovesan, Francesco Tabaro, Ivan Micetic, Marco Necci, Federica Quaglia, Christopher J. Oldfield, Maria Cristina Aspromonte, Norman E. Davey, Radoslav Davidovic, Zsuzsanna Dosztányi, Arne Elofsson, Alessandra Gasparini, András Hatos, Andrey V. Kajava, Lajos Kalmár, Emanuela Leonardi, Tamas Lazar, Sandra Macedo-Ribeiro, Mauricio Macossay-Castillo, Attila Meszaros, Giovanni Minervini, Nikoletta Murvai, Jordi Pujols, Daniel B. Roche, Edoardo Salladini, Éva Schád, Antoine Schramm, Beáta Szabó, Ágnes Tantos, Fiorella Tonello, Konstantinos D. Tsirigos, Nevena Veljkovic, Salvador Ventura, Wim F. Vranken, Per Warholm, Vladimir N. Uversky, A. Keith Dunker, Sonia Longhi, Peter Tompa, Silvio C. E. Tosatto

Nucleic Acids Res., 2017

SODA: prediction of protein solubility from disorder and aggregation propensity.

Lisanna Paladin, Damiano Piovesan, Silvio C. E. Tosatto

Nucleic Acids Res., 2017

RepeatsDB 2.0: improved annotation, classification, search and visualization of repeat protein structures.

Lisanna Paladin, Layla Hirsh, Damiano Piovesan, Miguel A. Andrade-Navarro, Andrey V. Kajava, Silvio C. E. Tosatto

Nucleic Acids Res., 2017

InterPro in 2017 - beyond protein family and domain annotations.

Robert D. Finn, Teresa K. Attwood, Patricia C. Babbitt, Alex Bateman, Peer Bork, Alan J. Bridge, Hsin-Yu Chang, Zsuzsanna Dosztányi, Sara El-Gebali, Matthew Fraser, Julian Gough, David Haft, Gemma L. Holliday, Hongzhan Huang, Xiaosong Huang, Ivica Letunic, Rodrigo Lopez, Shennan Lu, Aron Marchler-Bauer, Huaiyu Mi, Jaina Mistry, Darren A. Natale, Marco Necci, Gift Nuka, Christine A. Orengo, Young Mi Park, Sebastien Pesseat, Damiano Piovesan, Simon C. Potter, Neil D. Rawlings, Nicole Redaschi, Lorna J. Richardson, Catherine Rivoire, Amaia Sangrador-Vegas, Christian J. A. Sigrist, Ian Sillitoe, Ben Smithers, Silvano Squizzato, Granger G. Sutton, Narmada Thanki, Paul D. Thomas, Silvio C. E. Tosatto, Cathy H. Wu, Ioannis Xenarios, Lai-Su L. Yeh, Siew-Yit Yong, Alex L. Mitchell

Nucleic Acids Res., 2017

FELLS: fast estimator of latent local structure.

Damiano Piovesan, Ian Walsh, Giovanni Minervini, Silvio C. E. Tosatto

Bioinform., 2017

MobiDB-lite: fast and highly specific consensus prediction of intrinsic disorder in proteins.

Marco Necci, Damiano Piovesan, Zsuzsanna Dosztányi, Silvio C. E. Tosatto

Bioinform., 2017

2016

The RING 2.0 web server for high quality residue interaction networks.

Damiano Piovesan, Giovanni Minervini, Silvio C. E. Tosatto

Nucleic Acids Res., 2016

2015

INGA: protein function prediction combining interaction networks, domain assignments and sequence similarity.

Damiano Piovesan, Manuel Giollo, Emanuela Leonardi, Carlo Ferrari, Silvio C. E. Tosatto

Nucleic Acids Res., 2015

The Victor C++ library for protein representation and advanced manipulation.

Layla Hirsh, Damiano Piovesan, Manuel Giollo, Carlo Ferrari, Silvio C. E. Tosatto

Bioinform., 2015

2014

RepeatsDB: a database of tandem repeat protein structures.

Tomás Di Domenico, Emilio Potenza, Ian Walsh, R. Gonzalo Parra, Manuel Giollo, Giovanni Minervini, Damiano Piovesan, Awais Ihsan, Carlo Ferrari, Andrey V. Kajava, Silvio C. E. Tosatto

Nucleic Acids Res., 2014

2013

Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters: The Case Study of the ABC Transporters.

Damiano Piovesan, Giuseppe Profiti, Pier Luigi Martelli, Piero Fariselli, Rita Casadio

ACM J. Emerg. Technol. Comput. Syst., 2013

How to inherit statistically validated annotation within BAR+ protein clusters.

Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Giuseppe Profiti, Andrea Zauli, Ivan Rossi, Rita Casadio

BMC Bioinform., 2013

SUS-BAR: a database of pig proteins with statistically validated structural and functional annotation.

Damiano Piovesan, Giuseppe Profiti, Pier Luigi Martelli, Piero Fariselli, Luca Fontanesi, Rita Casadio

Database J. Biol. Databases Curation, 2013

Protein Sequence Annotation by means of Community Detection.

Giuseppe Profiti, Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Rita Casadio

Proceedings of the International Work-Conference on Bioinformatics and Biomedical Engineering, 2013

Community Detection within Clusters Helps Large Scale Protein Annotation - Preliminary Results of Modularity Maximization for the BAR+ Database.

Giuseppe Profiti, Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Rita Casadio

Proceedings of the BIOINFORMATICS 2013 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms, Barcelona, Spain, 11, 2013

2012

The human "magnesome": detecting magnesium binding sites on human proteins.

Damiano Piovesan, Giuseppe Profiti, Pier Luigi Martelli, Rita Casadio

BMC Bioinform., 2012

2011

BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences.

Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Andrea Zauli, Ivan Rossi, Rita Casadio

Nucleic Acids Res., 2011

Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins.

Castrense Savojardo, Piero Fariselli, Damiano Piovesan, Pier Luigi Martelli, Rita Casadio

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2011