Un linguaggio per esprimere transizioni. - Paolo Bottoni; Maria De Marsico; Paolo Di Tommaso; Stefano Levialdi; Domenico Ventriglia (WOA, 2002)

Definition of visual processes in a language for expressing transitions. - Paolo Bottoni; Maria De Marsico; Paolo Di Tommaso; Stefano Levialdi; Domenico Ventriglia (J. Vis. Lang. Comput., 2004)

Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud. - Paolo Di Tommaso; Miquel Orobitg; Fernando Guirado; Fernando Cores; Toni Espinosa; Cédric Notredame (Bioinform., 2010)

T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension. - Paolo Di Tommaso; Sébastien Moretti; Ioannis Xenarios; Miquel Orobitg; Alberto Montanyola; Jia-Ming Chang; Jean-François Taly; Cédric Notredame (Nucleic Acids Res., 2011)

AMPA: an automated web server for prediction of protein antimicrobial regions. - Marc Torrent 002; Paolo Di Tommaso; David Pulido; Victòria M. Nogués; Cédric Notredame; Ester Boix; David Andreu 002 (Bioinform., 2012)

Accurate multiple sequence alignment of transmembrane proteins with PSI-Coffee. - Jia-Ming Chang; Paolo Di Tommaso; Jean-François Taly; Cédric Notredame (BMC Bioinform., 2012)

T-RMSD: a web server for automated fine-grained protein structural classification. - Cedrik Magis; Paolo Di Tommaso; Cédric Notredame (Nucleic Acids Res., 2013)

SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments. - Paolo Di Tommaso; Giovanni Bussotti; Carsten Kemena; Emidio Capriotti; Maria Chatzou; Pablo Prieto; Cédric Notredame (Nucleic Acids Res., 2014)

TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction. - Jia-Ming Chang; Paolo Di Tommaso; Vincent Lefort; Olivier Gascuel; Cédric Notredame (Nucleic Acids Res., 2015)

PSI/TM-Coffee: a web server for fast and accurate multiple sequence alignments of regular and transmembrane proteins using homology extension on reduced databases. - Evan W. Floden; Paolo Di Tommaso; Maria Chatzou; Cedrik Magis; Cédric Notredame; Jia-Ming Chang (Nucleic Acids Res., 2016)

Nextflow integration for the Research Object Specification. - Edgar Garriga Nogales; Paolo Di Tommaso; Cédric Notredame (RO, 2018)

Incorporating alignment uncertainty into Felsenstein's phylogenetic bootstrap to improve its reliability. - Jia-Ming Chang; Evan W. Floden; Javier Herrero; Olivier Gascuel; Paolo Di Tommaso; Cédric Notredame (Bioinform., 2021)

Workflows Community Summit: Bringing the Scientific Workflows Community Together. - 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; et al. (CoRR, 2021)

Approaches for containerized scientific workflows in cloud environments with applications in life science. - 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 A. Moreno; et al. (F1000Research, 2021)

Workflows Community Summit 2022: A Roadmap Revolution. - 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 E. Laney; et al. (CoRR, 2023)

A terminology for scientific workflow systems. - Frédéric Suter; Tainã Coleman; Ilkay Altintas; Rosa M. Badia; Bartosz Balis; Kyle Chard; Iacopo Colonnelli; Ewa Deelman; Paolo Di Tommaso; Thomas Fahringer; Carole A. Goble; Shantenu Jha; et al. (Future Gener. Comput. Syst., 2026)