
Allegra Via
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2020 – today
- 2020
- [j31]Leyla J. Garcia
, Bérénice Batut
, Melissa L. Burke
, Mateusz Kuzak
, Fotis E. Psomopoulos, Ricardo Arcila
, Teresa K. Attwood
, Niall Beard
, Denise Carvalho-Silva, Alexandros C. Dimopoulos
, Victoria Dominguez Del Angel
, Michel Dumontier, Kim T. Gurwitz, Roland Krause, Peter McQuilton
, Loredana Le Pera, Sarah L. Morgan, Päivi Rauste, Allegra Via, Pascal Kahlem, Gabriella Rustici
, Celia W. G. van Gelder
, Patricia M. Palagi
:
Ten simple rules for making training materials FAIR. PLoS Comput. Biol. 16(5) (2020)
2010 – 2019
- 2019
- [j30]Allegra Via, Teresa K. Attwood
, Pedro L. Fernandes
, Sarah L. Morgan
, Maria Victoria Schneider, Patricia M. Palagi
, Gabriella Rustici
, Rochelle E. Tractenberg
:
A new pan-European Train-the-Trainer programme for bioinformatics: pilot results on feasibility, utility and sustainability of learning. Briefings Bioinform. 20(2): 405-415 (2019) - 2018
- [c2]Mateusz Kuzak, Jen Harrow, Rafael C. Jimenez, Paula Andrea Martinez
, Fotis E. Psomopoulos, Radka Svobodová Vareková, Allegra Via:
Lesson Development for Open Source Software Best Practices Adoption. eScience 2018: 19-20 - 2017
- [c1]Claudio Carta, Marco Roos, Annika Jacobsen, Rajaram Kaliyaperumal, Mark Thompson, Mark D. Wilkinson, Ronald Cornet, Andra Waagmeester, David van Enckevort, Mascha Jansen, Luana Licata, Allegra Via, Domenica Taruscio:
The FAIRification of Data and the Potential of FAIR Resources Demonstrated, in Practice, at the Rome Bring Your Own Data Workshop. SWAT4LS 2017 - 2016
- [j29]Jon C. Ison
, Kristoffer Rapacki, Hervé Ménager
, Matús Kalas
, Emil Rydza, Piotr Chmura
, Christian Anthon
, Niall Beard
, Karel Berka
, Dan M. Bolser
, Tim Booth
, Anthony Bretaudeau, Jan Brezovsky
, Rita Casadio
, Gianni Cesareni, Frederik Coppens
, Michael Cornell, Gianmauro Cuccuru
, Kristian Davidsen, Gianluca Della Vedova
, Tunca Dogan
, Olivia Doppelt-Azeroual
, Laura Emery, Elisabeth Gasteiger
, Thomas Gatter, Tatyana Goldberg, Marie Grosjean
, Björn A. Grüning
, Manuela Helmer-Citterich
, Hans Ienasescu, Vassilios Ioannidis
, Martin Closter Jespersen, Rafael C. Jimenez
, Nick S. Juty, Peter Juvan, Maximilian Koch, Camille Laibe, Jing-Woei Li, Luana Licata
, Fabien Mareuil
, Ivan Micetic
, Rune Møllegaard Friborg, Sébastien Moretti
, Chris Morris
, Steffen Möller, Aleksandra Nenadic, Hedi Peterson
, Giuseppe Profiti
, Peter M. Rice, Paolo Romano
, Paola Roncaglia, Rabie Saidi
, Andrea Schafferhans
, Veit Schwämmle
, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger
, Radka Svobodová Vareková, Silvio C. E. Tosatto
, Victor de la Torre, Paolo Uva
, Allegra Via, Guy Yachdav, Federico Zambelli
, Gert Vriend, Burkhard Rost, Helen E. Parkinson
, Peter Løngreen, Søren Brunak
:
Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Res. 44(Database-Issue): 38-47 (2016) - 2015
- [j28]Manuel Corpas
, Rafael C. Jimenez
, Erik Bongcam-Rudloff, Aidan Budd, Michelle D. Brazas
, Pedro L. Fernandes
, Bruno A. Gaëta, Celia W. G. van Gelder
, Eija Korpelainen, Fran Lewitter, Annette McGrath
, Daniel MacLean
, Patricia M. Palagi
, Kristian Rother, Jan Taylor, Allegra Via, Mick Watson
, Maria Victoria Schneider, Teresa K. Attwood:
The GOBLET training portal: a global repository of bioinformatics training materials, courses and trainers. Bioinform. 31(1): 140-142 (2015) - 2013
- [j27]Allegra Via, Thomas Blicher, Erik Bongcam-Rudloff, Michelle D. Brazas
, Catherine Brooksbank, Aidan Budd, Javier De Las Rivas
, Jacqueline Dreyer
, Pedro L. Fernandes
, Celia W. G. van Gelder
, Joachim Jacob, Rafael C. Jimenez
, Jane Loveland
, Federico Morán
, Nicola J. Mulder
, Tommi H. Nyrönen
, Kristian Rother, Maria Victoria Schneider, Teresa K. Attwood
:
Best practices in bioinformatics training for life scientists. Briefings Bioinform. 14(5): 528-537 (2013) - [j26]Rosalba Lepore
, Anna Tramontano, Allegra Via:
TiPs: a database of therapeutic targets in pathogens and associated tools. Bioinform. 29(14): 1821-1822 (2013) - [j25]Rafael C. Jimenez
, Juan P. Albar, Jong Bhak, Marie-Claude Blatter, Thomas Blicher, Michelle D. Brazas
, Catherine Brooksbank, Aidan Budd, Javier De Las Rivas
, Jacqueline Dreyer
, Marc A. van Driel, Michael J. Dunn, Pedro L. Fernandes
, Celia W. G. van Gelder
, Henning Hermjakob
, Vassilios Ioannidis
, David Phillip Judge, Pascal Kahlem
, Eija Korpelainen, Hans-Joachim Kraus, Jane Loveland
, Christine Mayer, Jennifer McDowall, Federico Morán
, Nicola J. Mulder
, Tommi H. Nyrönen
, Kristian Rother, Gustavo A. Salazar
, Reinhard Schneider, Allegra Via, Jose M. Villaveces, Ping Yu, Maria Victoria Schneider, Teresa K. Attwood
, Manuel Corpas
:
iAnn: an event sharing platform for the life sciences. Bioinform. 29(15): 1919-1921 (2013) - 2012
- [j24]Maria Victoria Schneider, Peter Walter, Marie-Claude Blatter, James Watson, Michelle D. Brazas
, Kristian Rother, Aidan Budd, Allegra Via, Celia W. G. van Gelder
, Joachim Jacob, Pedro L. Fernandes
, Tommi H. Nyrönen
, Javier De Las Rivas
, Thomas Blicher, Rafael C. Jimenez
, Jane Loveland
, Jennifer McDowall, Philip Jones, Brendan W. Vaughan
, Rodrigo Lopez
, Teresa K. Attwood
, Catherine Brooksbank
:
Bioinformatics Training Network (BTN): a community resource for bioinformatics trainers. Briefings Bioinform. 13(3): 383-389 (2012) - [j23]Holger Dinkel
, Sushama Michael, Robert J. Weatheritt
, Norman E. Davey
, Kim Van Roey, Brigitte Altenberg, Grischa Toedt, Bora Uyar
, Markus Seiler, Aidan Budd, Lisa Jödicke, Marcel A. Dammert, Christian Schroeter, Maria Hammer, Tobias Schmidt
, Peter Jehl, Caroline McGuigan, Magdalena Dymecka, Claudia Chica
, Katja Luck, Allegra Via, Andrew Chatr-aryamontri, Niall J. Haslam
, Gleb Grebnev, Richard J. Edwards
, Michel O. Steinmetz
, Heike Meiselbach, Francesca Diella, Toby J. Gibson
:
ELM - the database of eukaryotic linear motifs. Nucleic Acids Res. 40(Database-Issue): 242-251 (2012) - 2011
- [j22]Rosalba Lepore
, Silvia Simeoni, Domenico Raimondo, Antonia Caroli, Anna Tramontano, Allegra Via:
Identification of the Schistosoma mansoni Molecular Target for the Antimalarial Drug Artemether. J. Chem. Inf. Model. 51(11): 3005-3016 (2011) - [j21]Holger Dinkel
, Claudia Chica
, Allegra Via, Cathryn M. Gould, Lars Juhl Jensen
, Toby J. Gibson
, Francesca Diella:
Phospho.ELM: a database of phosphorylation sites - update 2011. Nucleic Acids Res. 39(Database-Issue): 261-267 (2011) - [j20]Andreas Zanzoni
, Daniel Carbajo
, Francesca Diella, Pier Federico Gherardini, Anna Tramontano, Manuela Helmer-Citterich
, Allegra Via:
Phospho3D 2.0: an enhanced database of three-dimensional structures of phosphorylation sites. Nucleic Acids Res. 39(Database-Issue): 268-271 (2011) - [j19]Allegra Via, Javier De Las Rivas
, Teresa K. Attwood
, David Landsman
, Michelle D. Brazas
, Jack A. M. Leunissen, Anna Tramontano, Maria Victoria Schneider
:
Ten Simple Rules for Developing a Short Bioinformatics Training Course. PLoS Comput. Biol. 7(10) (2011) - 2010
- [j18]Maria Victoria Schneider, James Watson, Teresa K. Attwood
, Kristian Rother, Aidan Budd, Jennifer McDowall, Allegra Via, Pedro L. Fernandes
, Tommi H. Nyrönen
, Thomas Blicher, Philip Jones, Marie-Claude Blatter, Javier De Las Rivas
, David Phillip Judge, Wouter van der Gool, Catherine Brooksbank
:
Bioinformatics training: a review of challenges, actions and support requirements. Briefings Bioinform. 11(6): 544-551 (2010) - [j17]Cathryn M. Gould, Francesca Diella, Allegra Via, Pål Puntervoll, Christine Gemünd, Sophie Chabanis-Davidson, Sushama Michael, Ahmed Sayadi, Jan Christian Bryne, Claudia Chica
, Markus Seiler, Norman E. Davey
, Niall J. Haslam
, Robert J. Weatheritt
, Aidan Budd, Tim Hughes, Jakub Pas, Leszek Rychlewski, Gilles Travé, Rein Aasland, Manuela Helmer-Citterich
, Rune Linding, Toby J. Gibson
:
ELM: the status of the 2010 eukaryotic linear motif resource. Nucleic Acids Res. 38(Database-Issue): 167-180 (2010)
2000 – 2009
- 2009
- [j16]Allegra Via, Cathryn M. Gould, Christine Gemünd, Toby J. Gibson
, Manuela Helmer-Citterich
:
A structure filter for the Eukaryotic Linear Motif Resource. BMC Bioinform. 10: 351 (2009) - 2008
- [j15]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) - [j14]Francesca Diella, Cathryn M. Gould, Claudia Chica
, Allegra Via, Toby J. Gibson
:
Phospho.ELM: a database of phosphorylation sites - update 2008. Nucleic Acids Res. 36(Database-Issue): 240-244 (2008) - 2007
- [j13]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) - [j12]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) - [j11]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) - [j10]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) - [j9]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
- [j8]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
- [j7]Allegra Via, Andreas Zanzoni
, Manuela Helmer-Citterich
:
Seq2Struct: a resource for establishing sequence-structure links. Bioinform. 21(4): 551-553 (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]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
- [j3]Allegra Via, Manuela Helmer-Citterich
:
A structural study for the optimisation of functional motifs encoded in protein sequences. BMC Bioinform. 5: 50 (2004) - [j2]Francesca Diella, Scott Cameron
, Christine Gemünd, Rune Linding, Allegra Via, Bernhard Küster
, Thomas Sicheritz-Pontén
, Nikolaj Blom
, Toby J. Gibson
:
Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins. BMC Bioinform. 5: 79 (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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