Gianni Cesareni

33 papers Journal 32Unranked 1
YearRankTypeTitle / Venue / Authors
2023 J jnl
SIGNOR 3.0, the SIGnaling network open resource 3.0: 2022 update.
Nucleic Acids Res.
Prisca Lo Surdo, Marta Iannuccelli, Silvia Contino, Luisa Castagnoli, Luana Licata, Gianni Cesareni, Livia Perfetto
2022 J jnl
SIGNORApp: a Cytoscape 3 application to access SIGNOR data.
Bioinform.
Ilaria De Marinis, Prisca Lo Surdo, Gianni Cesareni, Livia Perfetto
2022 J jnl
The IntAct database: efficient access to fine-grained molecular interaction data.
Nucleic Acids Res.
Noemi del-Toro, Anjali Shrivastava, Eliot Ragueneau, Birgit Meldal, Colin W. Combe, Elisabet Barrera, Livia Perfetto, Karyn How, Prashansa Ratan, Gautam Shirodkar, Odilia Lu, Bálint Mészáros, Xavier Watkins, Sangya Pundir, Luana Licata, Marta Iannuccelli, Matteo Pellegrini, Maria Jesus Martin, Simona Panni, Margaret J. Duesbury, Sylvain D. Vallet, Juri Rappsilber, Sylvie Ricard-Blum, Gianni Cesareni, Lukasz Salwínski, Sandra E. Orchard, Pablo Porras, Kalpana Panneerselvam, Henning Hermjakob
2020 J jnl
CancerGeneNet: linking driver genes to cancer hallmarks.
Nucleic Acids Res.
Marta Iannuccelli, Elisa Micarelli, Prisca Lo Surdo, Alessandro Palma, Livia Perfetto, Ilaria Rozzo, Luisa Castagnoli, Luana Licata, Gianni Cesareni
2020 J jnl
HiPPO and PANDA: Two Bioinformatics Tools to Support Analysis of Mass Cytometry Data.
J. Comput. Biol.
Stefano Pirrò, Filomena Spada, Emanuela Gadaleta, Federica Ferrentino, Graeme J. Thorn, Gianni Cesareni, Claude Chelala
2020 J jnl
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update.
Nucleic Acids Res.
Luana Licata, Prisca Lo Surdo, Marta Iannuccelli, Alessandro Palma, Elisa Micarelli, Livia Perfetto, Daniele Peluso, Alberto Calderone, Luisa Castagnoli, Gianni Cesareni
2020 J jnl
The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions.
Database J. Biol. Databases Curation
Livia Perfetto, Chiara Pastrello, Noemi del-Toro, Margaret J. Duesbury, Marta Iannuccelli, Max Kotlyar, Luana Licata, Birgit Meldal, Kalpana Panneerselvam, Simona Panni, N. Rahimzadeh, Sylvie Ricard-Blum, Lukasz Salwínski, Anjali Shrivastava, Gianni Cesareni, Matteo Pellegrini, Sandra E. Orchard, Igor Jurisica, Henning Hermjakob, Pablo Porras
2019 J jnl
CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination.
Bioinform.
Livia Perfetto, Marcio Luis Acencio, Glyn Bradley, Gianni Cesareni, Noemi del-Toro, Dávid Fazekas, Henning Hermjakob, Tamás Korcsmáros, Martin Kuiper, Astrid Lægreid, Prisca Lo Surdo, Ruth C. Lovering, Sandra E. Orchard, Pablo Porras, Paul D. Thomas, Vasundra Touré, John Zobolas, Luana Licata
2018 J jnl
Analysis of Triplet Motifs in Biological Signed Oriented Graphs Suggests a Relationship Between Fine Topology and Function.
CoRR
Alberto Calderone, Gianni Cesareni
2018 J jnl
DISNOR: a disease network open resource.
Nucleic Acids Res.
Prisca Lo Surdo, Alberto Calderone, Marta Iannuccelli, Luana Licata, Daniele Peluso, Luisa Castagnoli, Gianni Cesareni, Livia Perfetto
2018 J jnl
Encompassing new use cases - level 3.0 of the HUPO-PSI format for molecular interactions.
BMC Bioinform.
M. Sivade Dumousseau, Diego Alonso-López, Mais G. Ammari, Glyn Bradley, Nancy H. Campbell, Arnaud Céol, Gianni Cesareni, Colin W. Combe, Javier De Las Rivas, Noemi del-Toro, Joshua Heimbach, Henning Hermjakob, Igor Jurisica, Maximilian Koch, Luana Licata, Ruth C. Lovering, David J. Lynn, Birgit H. M. Meldal, Gos Micklem, Simona Panni, Pablo Porras, Sylvie Ricard-Blum, Bernd Roechert, Lukasz Salwínski, Anjali Shrivastava, Julie M. Sullivan, Nicolas Thierry-Mieg, Yo Yehudi, Kim Van Roey, Sandra E. Orchard
2018 J jnl
SPV: a JavaScript Signaling Pathway Visualizer.
Bioinform.
Alberto Calderone, Gianni Cesareni
2017 — conf
Revealing Disease Similarities by Text Mining.
SWAT4LS
Alberto Calderone, Luana Licata, Elisa Micarelli, Livia Perfetto, Gianni Cesareni
2016 J jnl
SIGNOR: a database of causal relationships between biological entities.
Nucleic Acids Res.
Livia Perfetto, Leonardo Briganti, Alberto Calderone, Andrea Cerquone Perpetuini, Marta Iannuccelli, Francesca Langone, Luana Licata, Milica Marinkovic, Anna Mattioni, Theodora Pavlidou, Daniele Peluso, Lucia Lisa Petrilli, Stefano Pirrò, Daniela Posca, Elena Santonico, Alessandra Silvestri, Filomena Spada, Luisa Castagnoli, Gianni Cesareni
2016 J jnl
Tools and data services registry: a community effort to document bioinformatics resources.
Nucleic Acids Res.
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. Jiménez, 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
2015 J jnl
The hierarchical organization of natural protein interaction networks confers self-organization properties on pseudocells.
BMC Syst. Biol.
Eugenia Galeota, Caius Gavrila, Filippo Castiglione, Massimo Bernaschi, Gianni Cesareni
2015 J jnl
VirusMentha: a new resource for virus-host protein interactions.
Nucleic Acids Res.
Alberto Calderone, Luana Licata, Gianni Cesareni
2014 J jnl
The MIntAct project - IntAct as a common curation platform for 11 molecular interaction databases.
Nucleic Acids Res.
Sandra E. Orchard, Mais G. Ammari, Bruno Aranda, Lionel Breuza, Leonardo Briganti, Fiona Broackes-Carter, Nancy H. Campbell, Gayatri Chavali, Carol Chen, Noemi del-Toro, Margaret J. Duesbury, Marine Dumousseau, Eugenia Galeota, Ursula Hinz, Marta Iannuccelli, Sruthi Jagannathan, Rafael C. Jiménez, Jyoti Khadake, Astrid Lægreid, Luana Licata, Ruth C. Lovering, Birgit Meldal, Anna N. Melidoni, Mila Milagros, Daniele Peluso, Livia Perfetto, Pablo Porras, Arathi Raghunath, Sylvie Ricard-Blum, Bernd Roechert, Andre Stutz, Michael Tognolli, Kim Van Roey, Gianni Cesareni, Henning Hermjakob
2012 J jnl
MINT, the molecular interaction database: 2012 update.
Nucleic Acids Res.
Luana Licata, Leonardo Briganti, Daniele Peluso, Livia Perfetto, Marta Iannuccelli, Eugenia Galeota, Francesca Sacco, Anita Palma, Aurelio Nardozza, Elena Santonico, Luisa Castagnoli, Gianni Cesareni
2011 J jnl
Benchmarking of the 2010 BioCreative Challenge III text-mining competition by the BioGRID and MINT interaction databases.
BMC Bioinform.
Andrew Chatr-aryamontri, Andrew G. Winter, Livia Perfetto, Leonardo Briganti, Luana Licata, Marta Iannuccelli, Luisa Castagnoli, Gianni Cesareni, Mike Tyers
2011 J jnl
BioCreative III interactive task: an overview.
BMC Bioinform.
Cecilia N. Arighi, Phoebe M. Roberts, Shashank Agarwal, Sanmitra Bhattacharya, Gianni Cesareni, Andrew Chatr-aryamontri, Simon Clematide, Pascale Gaudet, Michelle G. Giglio, Ian Harrow, Eva Huala, Martin Krallinger, Ulf Leser, Donghui Li, Feifan Liu, Zhiyong Lu, Lois J. Maltais, Naoaki Okazaki, Livia Perfetto, Fabio Rinaldi, Rune Sætre, David Salgado, Padmini Srinivasan, Philippe E. Thomas, Luca Toldo, Lynette Hirschman, Cathy H. Wu
2011 J jnl
The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text.
BMC Bioinform.
Martin Krallinger, Miguel Vazquez, Florian Leitner, David Salgado, Andrew Chatr-aryamontri, Andrew G. Winter, Livia Perfetto, Leonardo Briganti, Luana Licata, Marta Iannuccelli, Luisa Castagnoli, Gianni Cesareni, Mike Tyers, Gerold Schneider, Fabio Rinaldi, Robert Leaman, Graciela Gonzalez, Sérgio Matos, Sun Kim, W. John Wilbur, Luis M. Rocha, Hagit Shatkay, Ashish V. Tendulkar, Shashank Agarwal, Feifan Liu, Xinglong Wang, Rafal Rak, Keith Noto, Charles Elkan, Zhiyong Lu
2010 J jnl
An Overview of BioCreative II.5.
IEEE ACM Trans. Comput. Biol. Bioinform.
Florian Leitner, Scott A. Mardis, Martin Krallinger, Gianni Cesareni, Lynette Hirschman, Alfonso Valencia
2010 J jnl
Finding and sharing: new approaches to registries of databases and services for the biomedical sciences.
Database J. Biol. Databases Curation
Damian Smedley, Paul N. Schofield, Chao-Kung Chen, Vassilis Aidinis, Crysanthi Ainali, Jonathan B. L. Bard, Rudi Balling, Ewan Birney, Andrew Blake, Erik Bongcam-Rudloff, Anthony J. Brookes, Gianni Cesareni, Christina Chandras, Janan T. Eppig, Paul Flicek, Georgios V. Gkoutos, Simon Greenaway, Michael Gruenberger, Jean-Karim Hériché, Andrew Lyall, Ann-Marie Mallon, Dawn Muddyman, Florian Reisinger, Martin Ringwald, Nadia A. Rosenthal, Klaus Schughart, Morris A. Swertz, Gudmundur A. Thorisson, Michael Zouberakis, John M. Hancock
2010 J jnl
MINT, the molecular interaction database: 2009 update.
Nucleic Acids Res.
Arnaud Céol, Andrew Chatr-aryamontri, Luana Licata, Daniele Peluso, Leonardo Briganti, Livia Perfetto, Luisa Castagnoli, Gianni Cesareni
2009 J jnl
VirusMINT: a viral protein interaction database.
Nucleic Acids Res.
Andrew Chatr-aryamontri, Arnaud Céol, Daniele Peluso, Aurelio Nardozza, Simona Panni, Francesca Sacco, Michele Tinti, Alex Smolyar, Luisa Castagnoli, Marc Vidal, Michael E. Cusick, Gianni Cesareni
2007 J jnl
DOMINO: a database of domain-peptide interactions.
Nucleic Acids Res.
Arnaud Céol, Andrew Chatr-aryamontri, Elena Santonico, Roberto Sacco, Luisa Castagnoli, Gianni Cesareni
2007 J jnl
MINT: the Molecular INTeraction database.
Nucleic Acids Res.
Andrew Chatr-aryamontri, Arnaud Céol, Luisa Montecchi-Palazzi, Giuliano Nardelli, Maria Victoria Schneider, Luisa Castagnoli, Gianni Cesareni
2007 J jnl
ProtNet: a tool for stochastic simulations of protein interaction networks dynamics.
BMC Bioinform.
Massimo Bernaschi, Filippo Castiglione, Alessandra Ferranti, Caius Gavrila, Michele Tinti, Gianni Cesareni
2005 J jnl
HomoMINT: an inferred human network based on orthology mapping of protein interactions discovered in model organisms.
BMC Bioinform.
Maria Persico, Arnaud Céol, Caius Gavrila, Robert Hoffmann, Arnaldo Florio, Gianni Cesareni
2004 J jnl
IntAct: an open source molecular interaction database.
Nucleic Acids Res.
Henning Hermjakob, Luisa Montecchi-Palazzi, Chris Lewington, Sugath Mudali, Samuel Kerrien, Sandra E. Orchard, Martin Vingron, Bernd Roechert, Peter Roepstorff, Alfonso Valencia, Hanah Margalit, John Armstrong, Amos Bairoch, Gianni Cesareni, David James Sherman, Rolf Apweiler
2003 J jnl
ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins.
Nucleic Acids Res.
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
1987 J jnl
Structure of the Saccharomyces cerevisiae gene encoding tRNAIle (IAU).
Nucleic Acids Res.
Franco Felici, Gianni Cesareni