Paolo Di Tommaso

Publication Activity (10 Years)

Years Active: 2002-2023
Publications (10 Years): 6

Top Topics

Multiple Sequence Alignments

Scientific Workflows

Protein Structural

Top Venues

Nucleic Acids Res.

Publications

Rafael Ferreira da Silva, Rosa M. Badia, Venkat Bala, Debbie Bard, Peer-Timo Bremer, Ian Buckley, Silvina Caíno-Lores, Kyle Chard, Carole A. Goble, Shantenu Jha, Daniel S. Katz, Daniel Laney, Manish Parashar, Frédéric Suter, Nick Tyler, Thomas D. Uram, Ilkay Altintas, Stefan Andersson, William Arndt, Juan Aznar, Jonathan Bader, Bartosz Balis, Chris Blanton, Kelly Rosa Braghetto, Aharon Brodutch, Paul Brunk, Henri Casanova, Alba Cervera-Lierta, Justin Chigu, Tainã Coleman, Nick Collier, Iacopo Colonnelli, Frederik Coppens, Michael R. Crusoe, Will Cunningham, Bruno de Paula Kinoshita, Paolo Di Tommaso, Charles M. Doutriaux, Matthew Downton, Wael R. Elwasif, Bjoern Enders, Chris Erdmann, Thomas Fahringer, Ludmilla Figueiredo, Rosa Filgueira, Martin Foltin, Anne Fouilloux, Luiz Gadelha, Andy Gallo, Artur García-Sáez, et al.
Workflows Community Summit 2022: A Roadmap Revolution. CoRR (2023)
Jia-Ming Chang, Evan W. Floden, Javier Herrero, Olivier Gascuel, Paolo Di Tommaso, Cédric Notredame
Incorporating alignment uncertainty into Felsenstein's phylogenetic bootstrap to improve its reliability. Bioinform. 37 (11) (2021)
Rafael Ferreira da Silva, Henri Casanova, Kyle Chard, Dan Laney, Dong H. Ahn, Shantenu Jha, Carole A. Goble, Lavanya Ramakrishnan, J. Luc Peterson, Bjoern Enders, Douglas Thain, Ilkay Altintas, Yadu N. Babuji, Rosa M. Badia, Vivien Bonazzi, Tainã Coleman, Michael R. Crusoe, Ewa Deelman, Frank Di Natale, Paolo Di Tommaso, Thomas Fahringer, Rosa Filgueira, Grigori Fursin, Alex Ganose, Björn A. Grüning, Daniel S. Katz, Olga Kuchar, Ana Kupresanin, Bertram Ludäscher, Ketan Maheshwari, Marta Mattoso, Kshitij Mehta, Todd S. Munson, Jonathan Ozik, Tom Peterka, Loic Pottier, Tim Randles, Stian Soiland-Reyes, Benjamín Tovar, Matteo Turilli, Thomas D. Uram, Karan Vahi, Michael Wilde, Matthew Wolf, Justin M. Wozniak
Workflows Community Summit: Bringing the Scientific Workflows Community Together. CoRR (2021)
Ola Spjuth, Marco Capuccini, Matteo Carone, Anders Larsson, Wesley Schaal, Jon Ander Novella, Oliver Stein, Morgan Ekmefjord, Paolo Di Tommaso, Evan W. Floden, Cédric Notredame, Pablo Moreno, Andreas Hellander, Payam Emami Khoonsari, Stephanie Herman, Kim Kultima, Samuel Lampa
Approaches for containerized scientific workflows in cloud environments with applications in life science. F1000Research 10 (2021)
Edgar Garriga Nogales, Paolo Di Tommaso, Cédric Notredame
Nextflow integration for the Research Object Specification. RO (2018)
Evan W. Floden, Paolo Di Tommaso, Maria Chatzou, Cedrik Magis, Cédric Notredame, Jia-Ming Chang
PSI/TM-Coffee: a web server for fast and accurate multiple sequence alignments of regular and transmembrane proteins using homology extension on reduced databases. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Jia-Ming Chang, Paolo Di Tommaso, Vincent Lefort, Olivier Gascuel, Cédric Notredame
TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction. Nucleic Acids Res. 43 (Webserver-Issue) (2015)
Paolo Di Tommaso, Giovanni Bussotti, Carsten Kemena, Emidio Capriotti, Maria Chatzou, Pablo Prieto, Cédric Notredame
SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments. Nucleic Acids Res. 42 (Webserver-Issue) (2014)
Cedrik Magis, Paolo Di Tommaso, Cédric Notredame
T-RMSD: a web server for automated fine-grained protein structural classification. Nucleic Acids Res. 41 (Webserver-Issue) (2013)
Marc Torrent, Paolo Di Tommaso, David Pulido, Victòria M. Nogués, Cédric Notredame, Ester Boix, David Andreu
AMPA: an automated web server for prediction of protein antimicrobial regions. Bioinform. 28 (1) (2012)
Jia-Ming Chang, Paolo Di Tommaso, Jean-François Taly, Cédric Notredame
Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee. BMC Bioinform. 13 (S-4) (2012)
Paolo Di Tommaso, Sébastien Moretti, Ioannis Xenarios, Miquel Orobitg, Alberto Montanyola, Jia-Ming Chang, Jean-François Taly, Cédric Notredame
T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Paolo Di Tommaso, Miquel Orobitg, Fernando Guirado, Fernando Cores, Toni Espinosa, Cédric Notredame
Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud. Bioinform. 26 (15) (2010)
Paolo Bottoni, Maria De Marsico, Paolo Di Tommaso, Stefano Levialdi, Domenico Ventriglia
Definition of visual processes in a language for expressing transitions. J. Vis. Lang. Comput. 15 (3-4) (2004)
Paolo Bottoni, Maria De Marsico, Paolo Di Tommaso, Stefano Levialdi, Domenico Ventriglia
Un linguaggio per esprimere transizioni. WOA (2002)