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ORCIDGabriele Ausiello
Person information
- affiliation: University of Rome Tor Vergata, Centre for Molecular Bioinformatics, Italy
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Journal Articles
- 2021
[j23]Andrea Guarracino
, Gerardo Pepe, Francesco Ballesio, Marta Adinolfi, Marco Pietrosanto, Elisa Sangiovanni, Ilio Vitale, Gabriele Ausiello, Manuela Helmer-Citterich:
BRIO: a web server for RNA sequence and structure motif scan. Nucleic Acids Res. 49(Webserver-Issue): 67-71 (2021)- 2019
- [j22]Luca Parca, Bruno Ariano, Andrea Cabibbo, Marco Paoletti, Annalaura Tamburrini, Antonio Palmeri, Gabriele Ausiello, Manuela Helmer-Citterich:
Kinome-wide identification of phosphorylation networks in eukaryotic proteomes. Bioinform. 35(3): 372-379 (2019) - [j21]Giacomo Janson, Alessandro Grottesi, Marco Pietrosanto, Gabriele Ausiello, Giulia Guarguaglini, Alessandro Paiardini:
Revisiting the "satisfaction of spatial restraints" approach of MODELLER for protein homology modeling. PLoS Comput. Biol. 15(12) (2019) - 2018
- [j20]Marco Pietrosanto, Marta Adinolfi, Riccardo Casula, Gabriele Ausiello, Fabrizio Ferrè, Manuela Helmer-Citterich:
BEAM web server: a tool for structural RNA motif discovery. Bioinform. 34(6): 1058-1060 (2018) - 2013
- [j19]Valerio Bianchi, Alessio Colantoni, Alberto Calderone, Gabriele Ausiello, Fabrizio Ferrè, Manuela Helmer-Citterich:
DBATE: database of alternative transcripts expression. Database J. Biol. Databases Curation 2013 (2013) - [j18]Luca Parca, Fabrizio Ferrè, Gabriele Ausiello, Manuela Helmer-Citterich:
Nucleos: a web server for the identification of nucleotide-binding sites in protein structures. Nucleic Acids Res. 41(Webserver-Issue): 281-285 (2013) - [j17]Valerio Bianchi, Iolanda Mangone, Fabrizio Ferrè, Manuela Helmer-Citterich, Gabriele Ausiello:
webPDBinder: a server for the identification of ligand binding sites on protein structures. Nucleic Acids Res. 41(Webserver-Issue): 308-313 (2013) - 2012
- [j16]Valerio Bianchi, Pier Federico Gherardini, Manuela Helmer-Citterich, Gabriele Ausiello:
Identification of binding pockets in protein structures using a knowledge-based potential derived from local structural similarities. BMC Bioinform. 13(S-4): S17 (2012) - 2011
- [j15]Luca Parca, Iolanda Mangone, Pier Federico Gherardini, Gabriele Ausiello, Manuela Helmer-Citterich:
Phosfinder: a web server for the identification of phosphate-binding sites on protein structures. Nucleic Acids Res. 39(Web-Server-Issue): 278-282 (2011) - 2009
- [j14]Gabriele Ausiello, Pier Federico Gherardini, Elena Gatti, Ottaviano Incani, Manuela Helmer-Citterich:
Structural motifs recurring in different folds recognize the same ligand fragments. BMC Bioinform. 10 (2009) - 2008
- [j13]Gabriele Ausiello, Pier Federico Gherardini, Paolo Marcatili, Anna Tramontano, Allegra Via, Manuela Helmer-Citterich:
FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures. BMC Bioinform. 9(S-2) (2008) - 2007
- [j12]Gabriele Ausiello, Daniele Peluso, Allegra Via, Manuela Helmer-Citterich:
Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites. BMC Bioinform. 8(S-1) (2007) - [j11]Allegra Via, Pier Federico Gherardini, Enrico Ferraro, Gabriele Ausiello, Gianpaolo Scalia Tomba, Manuela Helmer-Citterich:
False occurrences of functional motifs in protein sequences highlight evolutionary constraints. BMC Bioinform. 8 (2007) - [j10]Andreas Zanzoni, Gabriele Ausiello, Allegra Via, Pier Federico Gherardini, Manuela Helmer-Citterich:
Phospho3D: a database of three-dimensional structures of protein phosphorylation sites. Nucleic Acids Res. 35(Database-Issue): 229-231 (2007) - [j9]Allegra Via, Daniele Peluso, Pier Federico Gherardini, Emanuele de Rinaldis, Teresa Colombo, Gabriele Ausiello, Manuela Helmer-Citterich:
3dLOGO: a web server for the identification, analysis and use of conserved protein substructures. Nucleic Acids Res. 35(Web-Server-Issue): 416-419 (2007) - [j8]Enrico Ferraro, Daniele Peluso, Allegra Via, Gabriele Ausiello, Manuela Helmer-Citterich:
SH3-Hunter: discovery of SH3 domain interaction sites in proteins. Nucleic Acids Res. 35(Web-Server-Issue): 451-454 (2007) - 2006
- [j7]Enrico Ferraro, Allegra Via, Gabriele Ausiello, Manuela Helmer-Citterich:
A novel structure-based encoding for machine-learning applied to the inference of SH3 domain specificity. Bioinform. 22(19): 2333-2339 (2006) - 2005
- [j6]Gabriele Ausiello, Allegra Via, Manuela Helmer-Citterich:
Query3d: a new method for high-throughput analysis of functional residues in protein structures. BMC Bioinform. 6(S-4) (2005) - [j5]Enrico Ferraro, Allegra Via, Gabriele Ausiello, Manuela Helmer-Citterich:
A neural strategy for the inference of SH3 domain-peptide interaction specificity. BMC Bioinform. 6(S-4) (2005) - [j4]Fabrizio Ferrè, Gabriele Ausiello, Andreas Zanzoni, Manuela Helmer-Citterich:
Functional annotation by identification of local surface similarities: a novel tool for structural genomics. BMC Bioinform. 6: 194 (2005) - [j3]Gabriele Ausiello, Andreas Zanzoni, Daniele Peluso, Allegra Via, Manuela Helmer-Citterich:
pdbFun: mass selection and fast comparison of annotated PDB residues. Nucleic Acids Res. 33(Web-Server-Issue): 133-137 (2005) - 2004
- [j2]Fabrizio Ferrè, Gabriele Ausiello, Andreas Zanzoni, Manuela Helmer-Citterich:
SURFACE: a database of protein surface regions for functional annotation. Nucleic Acids Res. 32(Database-Issue): 240-244 (2004) - 2003
- [j1]Pål Puntervoll, Rune Linding, Christine Gemünd, Sophie Chabanis-Davidson, Morten Mattingsdal, Scott Cameron, David M. A. Martin, Gabriele Ausiello, Barbara Brannetti, Anna Costantini, Fabrizio Ferrè, Vincenza Maselli, Allegra Via, Gianni Cesareni, Francesca Diella, Giulio Superti-Furga, Lucjan Stanislaw Wyrwicz, Chenna Ramu, Caroline McGuigan, Rambabu Gudavalli, Ivica Letunic, Peer Bork, Leszek Rychlewski, Bernhard Küster, Manuela Helmer-Citterich, William N. Hunter, Rein Aasland, Toby J. Gibson:
ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res. 31(13): 3625-3630 (2003)
Coauthor Index
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