ZAMBELLI, FEDERICO

ZAMBELLI, FEDERICO  

Istituto di Biomembrane, Bioenergetica e Biotecnologie Molecolari (IBIOM)  

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Dynamic configuration and data security for bioinformatics cloud services with the Laniakea Dashboard 1-gen-2024 Tangaro, M. A.; Antonacci, M.; Donvito, G.; Foggetti, N.; Mandreoli, P.; Colombo, D.; Pesole, G.; Zambelli, F.
The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update 1-gen-2024 L Abueg, Linelle Ann; Afgan, Enis; Allart, Olivier; H Awan, Ahmed; A Bacon, Wendi; Baker, Dannon; Bassetti, Madeline; Batut, Bérénice; Bernt, Matthias; Blankenberg, Daniel; Bombarely, Aureliano; Bretaudeau, Anthony; J Bromhead, Catherine; L Burke, Melissa; K Capon, Patrick; Čech, Martin; Chavero-Díez, María; M Chilton, John; J Collins, Tyler; Coppens, Frederik; Coraor, Nate; Cuccuru, Gianmauro; Cumbo, Fabio; Davis, John; F De Geest, Paul; de Koning, Willem; Demko, Martin; Desanto, Assunta; Manuel Domínguez Begines, José; A Doyle, Maria; Droesbeke, Bert; Erxleben-Eggenhofer, Anika; C Föll, Melanie; Formenti, Giulio; Fouilloux, Anne; Gangazhe, Rendani; Genthon, Tanguy; Goecks, Jeremy; N Gonzalez Beltran, Alejandra; A Goonasekera, Nuwan; Goué, Nadia; J Griffin, Timothy; A Grüning, Björn; Guerler, Aysam; Gundersen, Sveinung; Johan Ragnar Gustafsson, Ove; Hall, Christina; W Harrop, Thomas; Hecht, Helge; Heidari, Alireza; Heisner, Tillman; Heyl, Florian; Hiltemann, Saskia; Hotz, Hans-Rudolf; J Hyde, Cameron; D Jagtap, Pratik; Jakiela, Julia; E Johnson, James; Joshi, Jayadev; Jossé, Marie; Jum’Ah, Khaled; Kalaš, Matúš; Kamieniecka, Katarzyna; Kayikcioglu, Tunc; Konkol, Markus; Kostrykin, Leonid; Kucher, Natalie; Kumar, Anup; Kuntz, Mira; Lariviere, Delphine; Lazarus, Ross; Le Bras, Yvan; Le Corguillé, Gildas; Lee, Justin; Leo, Simone; Liborio, Leandro; Libouban, Romane; López Tabernero, David; Lopez-Delisle, Lucille; S Los, Laila; Mahmoud, Alexandru; Makunin, Igor; Marin, Pierre; Mehta, Subina; Mok, Winnie; A Moreno, Pablo; Morier-Genoud, François; Mosher, Stephen; Müller, Teresa; Nasr, Engy; Nekrutenko, Anton; M Nelson, Tiffanie; J Oba, Asime; Ostrovsky, Alexander; V Polunina, Polina; Poterlowicz, Krzysztof; J Price, Elliott; R Price, Gareth; Rasche, Helena; Raubenolt, Bryan; Royaux, Coline; Sargent, Luke; T Savage, Michelle; Savchenko, Volodymyr; Savchenko, Denys; C Schatz, Michael; Seguineau, Pauline; Serrano-Solano, Beatriz; Soranzo, Nicola; Kumar Srikakulam, Sanjay; Suderman, Keith; E Syme, Anna; Tangaro, MARCO ANTONIO; A Tedds, Jonathan; Tekman, Mehmet; Cheng (Mike) Thang, Wai; S Thanki, Anil; Uhl, Michael; van den Beek, Marius; Varshney, Deepti; Vessio, Jenn; Videm, Pavankumar; Von Kuster, Greg; R Watson, Gregory; Whitaker-Allen, Natalie; Winter, Uwe; Wolstencroft, Martin; Zambelli, Federico; Zierep, Paul; Zoabi, Rand
The Laniakea Dashboard and Storage Encryption Components: A Foundation for Developing On-Demand Cloud Services for Life Science 1-gen-2023 Tangaro, M. A.; Antonacci, M.; Mandreoli, P.; Colombo, D.; Foggetti, N.; Donvito, G.; Pesole, G.; Zambelli, F.
Using “Galaxy-rCASC”: A Public Galaxy Instance for Single-Cell RNA-Seq Data Analysis 1-gen-2023 Mandreoli, P.; Alessandri, L.; Calogero, R. A.; Tangaro, M. A.; Zambelli, F.
UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions 1-gen-2023 Giudice, C. L.; Zambelli, F.; Chiara, M.; Pavesi, G.; Tangaro, M. A.; Picardi, E.; Pesole, G.
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update 1-gen-2022 Afgan, E.; Nekrutenko, A.; Gruning, B. A.; Blankenberg, D.; Goecks, J.; Schatz, M. C.; Ostrovsky, A. E.; Mahmoud, A.; Lonie, A. J.; Syme, A.; Fouilloux, A.; Bretaudeau, A.; Kumar, A.; Eschenlauer, A. C.; Desanto, A. D.; Guerler, A.; Serrano-Solano, B.; Batut, B.; Gruning, B. A.; Langhorst, B. W.; Carr, B.; Raubenolt, B. A.; Hyde, C. J.; Bromhead, C. J.; Barnett, C. B.; Royaux, C.; Gallardo, C.; Blankenberg, D.; Fornika, D. J.; Baker, D.; Bouvier, D.; Clements, D.; De Lima Morais, D. A.; Tabernero, D. L.; Lariviere, D.; Nasr, E.; Afgan, E.; Zambelli, F.; Heyl, F.; Psomopoulos, F.; Coppens, F.; Price, G. R.; Cuccuru, G.; Corguille, G. L.; Von Kuster, G.; Akbulut, G. G.; Rasche, H.; Hans-Rudolf, H.; Eguinoa, I.; Makunin, I.; Ranawaka, I. J.; Taylor, J. P.; Joshi, J.; Hillman-Jackson, J.; Chilton, J. M.; Kamali, K.; Suderman, K.; Poterlowicz, K.; Yvan, L. B.; Lopez-Delisle, L.; Sargent, L.; Bassetti, M. E.; Tangaro, M. A.; Van Den Beek, M.; Cech, M.; Bernt, M.; Fahrner, M.; Tekman, M.; Foll, M. C.; Schatz, M. C.; Crusoe, M. R.; Roncoroni, M.; Kucher, N.; Coraor, N.; Stoler, N.; Rhodes, N.; Soranzo, N.; Pinter, N.; Goonasekera, N. A.; Moreno, P. A.; Videm, P.; Melanie, P.; Mandreoli, P.; Jagtap, P. D.; Gu, Q.; Weber, R. J. M.; Lazarus, R.; Vorderman, R. H. P.; Hiltemann, S.; Golitsynskiy, S.; Garg, S.; Bray, S. A.; Gladman, S. L.; Leo, S.; Mehta, S. P.; Griffin, T. J.; Jalili, V.; Yves, V.; Wen, V.; Nagampalli, V. K.; Bacon, W. A.; De Koning, W.; Maier, W.; Briggs, P. J.
aScan: A Novel Method for the Study of Allele Specific Expression in Single Individuals 1-gen-2021 Zambelli, F.; Chiara, M.; Ferrandi, E.; Mandreoli, P.; Tangaro, M. A.; Pavesi, G.; Pesole, G.
DOME: recommendations for supervised machine learning validation in biology 1-gen-2021 Walsh, I.; Fishman, D.; Garcia-Gasulla, D.; Titma, T.; Pollastri, G.; Capriotti, E.; Casadio, R.; Capella-Gutierrez, S.; Cirillo, D.; Del Conte, A.; Dimopoulos, A. C.; Del Angel, V. D.; Dopazo, J.; Fariselli, P.; Fernandez, J. M.; Huber, F.; Kreshuk, A.; Lenaerts, T.; Martelli, P. L.; Navarro, A.; Broin, P. O.; Pinero, J.; Piovesan, D.; Reczko, M.; Ronzano, F.; Satagopam, V.; Savojardo, C.; Spiwok, V.; Tangaro, M. A.; Tartari, G.; Salgado, D.; Valencia, A.; Zambelli, F.; Harrow, J.; Psomopoulos, F. E.; Tosatto, S. C. E.
Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service 1-gen-2021 Tangaro, M. A.; Mandreoli, P.; Chiara, M.; Donvito, G.; Antonacci, M.; Parisi, A.; Bianco, A.; Romano, A.; Bianchi, D. M.; Cangelosi, D.; Uva, P.; Molineris, I.; Nosi, V.; Calogero, R. A.; Alessandri, L.; Pedrini, E.; Mordenti, M.; Bonetti, E.; Sangiorgi, L.; Pesole, G.; Zambelli, F.
Next generation sequencing of SARS-CoV-2 genomes: Challenges, applications and opportunities 1-gen-2021 Chiara, M.; D'Erchia, A. M.; Gissi, C.; Manzari, C.; Parisi, A.; Resta, N.; Zambelli, F.; Picardi, E.; Pavesi, G.; Horner, D. S.; Pesole, G.
YAP contributes to DNA methylation remodeling upon mouse embryonic stem cell differentiation 1-gen-2021 Passaro, Fabiana; De Martino, Ilaria; Zambelli, Federico; Di Benedetto, Giorgia; Barbato, Matteo; D'Erchia, ANNA MARIA; Manzari, Caterina; Pesole, Graziano; Mutarelli, Margherita; Cacchiarelli, Davide; Antonini, Dario; Parisi, Silvia; Russo, Tommaso
CorGAT: A tool for the functional annotation of SARS-CoV-2 genomes 1-gen-2020 Chiara, M.; Zambelli, F.; Tangaro, M. A.; Mandreoli, P.; Horner, D. S.; Pesole, G.
ELIXIR-IT HPC@CINECA: High performance computing resources for the bioinformatics community 1-gen-2020 Castrignano, T; Gioiosa, S; Flati, T; Cestari, M; Picardi, E; Chiara, M; Fratelli, M; Amente, S; Cirilli, M; Tangaro, Ma; Chillemi, G; Pesole, G; Zambelli, F
Laniakea: An open solution to provide Galaxy "on-demand" instances over heterogeneous cloud infrastructures 1-gen-2020 Tangaro, Ma; Donvito, G; Antonacci, M; Chiara, M; Mandreoli, P; Pesole, G; Zambelli, F
The ELIXIR-IT Training Programme: an overview of activities, collaborations and strategies 1-gen-2020 Le Pera, Loredana; Colonna, Vincenza; DE LEO, Francesca; Licata, Luana; Marabotti, Anna; Miçetiç, Ivan; Zambelli, Federico; Pesole, Graziano; Via, Allegra
VINYL: Variant prIoritizatioN by survivaL analysis 1-gen-2020 Chiara, M.; Mandreoli, P.; Tangaro, M. A.; D'Erchia, A. M.; Sorrentino, S.; Forleo, C.; Horner, D. S.; Zambelli, F.; Pesole, G.
INDIGO-DataCloud: a Platform to Facilitate Seamless Access to E-Infrastructures 1-gen-2018 Salomoni, D; Campos, I; Gaido, L; de Lucas, Jm; Solagna, P; Gomes, J; Matyska, L; Fuhrman, P; Hardt, M; Donvito, G; Dutka, L; Plociennik, M; Barbera, R; Blanquer, I; Ceccanti, A; Cetinic, E; David, M; Duma, C; Lopezgarcia, A; Molto, G; Orviz, P; Sustr, Z; Viljoen, M; Aguilar, F; Alves, L; Antonacci, M; Antonelli, La; Bagnasco, S; Bonvin, Amjj; Bruno, R; Chen, Y; Costa, A; Davidovic, D; Ertl, B; Fargetta, M; Fiore, S; Gallozzi, S; Kurkcuoglu, Z; Lloret, L; Martins, J; Nuzzo, A; Nassisi, P; Palazzo, C; Pina, J; Sciacca, E; Spiga, D; Tangaro, M; Urbaniak, M; Vallero, S; Wegh, B; Zaccolo, V; Zambelli, F; Zok, T
Overcritical Rotation of a Trapped Bose-Einstein Condensate 1-gen-2001 Recati, A.; Zambelli, F.; Stringari, S.