UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions von Lo Giudice, Claudio, Zambelli, Federico, Chiara, Matteo, Pavesi, Giulio, Tangaro, Marco Antonio, Picardi, Ernesto, Pesole, Graziano

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ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community von Castrignanò, Tiziana, Gioiosa, Silvia, Flati, Tiziano, Cestari, Mirko, Picardi, Ernesto, Chiara, Matteo, Fratelli, Maddalena, Amente, Stefano, Cirilli, Marco, Tangaro, Marco Antonio, Chillemi, Giovanni, Pesole, Graziano, Zambelli, Federico

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Dynamic configuration and data security for bioinformatics cloud services with the Laniakea Dashboard von Tangaro, Marco Antonio, Antonacci, Marica, Donvito, Giacinto, Foggetti, Nadina, Mandreoli, Pietro, Colombo, Daniele, Pesole, Graziano, Zambelli, Federico

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Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service von Tangaro, Marco Antonio, Mandreoli, Pietro, Chiara, Matteo, Donvito, Giacinto, Antonacci, Marica, Parisi, Antonio, Bianco, Angelica, Romano, Angelo, Bianchi, Daniela Manila, Cangelosi, Davide, Uva, Paolo, Molineris, Ivan, Nosi, Vladimir, Calogero, Raffaele A, Alessandri, Luca, Pedrini, Elena, Mordenti, Marina, Bonetti, Emanuele, Sangiorgi, Luca, Pesole, Graziano, Zambelli, Federico

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The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update von Afgan, Enis, Nekrutenko, Anton, Grüning, Bjórn A, Blankenberg, Daniel, Goecks, Jeremy, Schatz, Michael C, Ostrovsky, Alexander E, Mahmoud, Alexandru, Lonie, Andrew J, Syme, Anna, Fouilloux, Anne, Bretaudeau, Anthony, Kumar, Anup, Eschenlauer, Arthur C, DeSanto, Assunta D, Guerler, Aysam, Serrano-Solano, Beatriz, Batut, Bérénice, Grüning, Björn A, Langhorst, Bradley W, Carr, Bridget, Raubenolt, Bryan A, Hyde, Cameron J, Bromhead, Catherine J, Barnett, Christopher B, Royaux, Coline, Gallardo, Cristóbal, Fornika, Daniel J, Baker, Dannon, Bouvier, Dave, Clements, Dave, de Lima Morais, David A, Tabernero, David Lopez, Lariviere, Delphine, Nasr, Engy, Zambelli, Federico, Heyl, Florian, Psomopoulos, Fotis, Coppens, Frederik, Price, Gareth R, Cuccuru, Gianmauro, Corguillé, Gildas Le, Von Kuster, Greg, Akbulut, Gulsum Gudukbay, Rasche, Helena, Hotz, Hans-Rudolf, Eguinoa, Ignacio, Makunin, Igor, Ranawaka, Isuru J, Taylor, James P, Joshi, Jayadev, Hillman-Jackson, Jennifer, Chilton, John M, Kamali, Kaivan, Suderman, Keith, Poterlowicz, Krzysztof, Yvan, Le Bras, Lopez-Delisle, Lucille, Sargent, Luke, Bassetti, Madeline E, Tangaro, Marco Antonio, van den Beek, Marius, Čech, Martin, Bernt, Matthias, Fahrner, Matthias, Tekman, Mehmet, Föll, Melanie C, Crusoe, Michael R, Roncoroni, Miguel, Kucher, Natalie, Coraor, Nate, Stoler, Nicholas, Rhodes, Nick, Soranzo, Nicola, Pinter, Niko, Goonasekera, Nuwan A, Moreno, Pablo A, Videm, Pavankumar, Melanie, Petera, Mandreoli, Pietro, Jagtap, Pratik D, Gu, Qiang, Weber, Ralf J M, Lazarus, Ross, Vorderman, Ruben H P, Hiltemann, Saskia, Golitsynskiy, Sergey, Garg, Shilpa, Bray, Simon A, Gladman, Simon L, Leo, Simone, Mehta, Subina P, Griffin, Timothy J, Jalili, Vahid, Yves, Vandenbrouck, Wen, Victor, Nagampalli, Vijay K, Bacon, Wendi A, de Koning, Willem, Maier, Wolfgang

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DOME: recommendations for supervised machine learning validation in biology von Walsh, Ian, Fishman, Dmytro, Garcia-Gasulla, Dario, Titma, Tiina, Pollastri, Gianluca, Harrow, Jennifer, Psomopoulos, Fotis E., Tosatto, Silvio C. E.

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Investigating RNA editing in deep transcriptome datasets with REDItools and REDIportal von Lo Giudice, Claudio, Tangaro, Marco Antonio, Pesole, Graziano, Picardi, Ernesto

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REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments von Mansi, Luigi, Tangaro, Marco Antonio, Lo Giudice, Claudio, Flati, Tiziano, Kopel, Eli, Schaffer, Amos Avraham, Castrignanò, Tiziana, Chillemi, Giovanni, Pesole, Graziano, Picardi, Ernesto

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aScan: A Novel Method for the Study of Allele Specific Expression in Single Individuals von Zambelli, Federico, Chiara, Matteo, Ferrandi, Erika, Mandreoli, Pietro, Tangaro, Marco Antonio, Pavesi, Giulio, Pesole, Graziano

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Identified charged hadron production in Pb-Pb collisions with event shape engineering von Tangaro, Marco Antonio

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CorGAT: a tool for the functional annotation of SARS-CoV-2 genomes von Chiara, Matteo, Zambelli, Federico, Tangaro, Marco Antonio, Mandreoli, Pietro, Horner, David S, Pesole, Graziano

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VINYL: Variant prIoritizatioN bY survivaL analysis von Chiara, Matteo, Mandreoli, Pietro, Tangaro, Marco Antonio, D’Erchia, Anna Maria, Sorrentino, Sandro, Forleo, Cinzia, Horner, David S, Zambelli, Federico, Pesole, Graziano

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PIPE-T: a new Galaxy tool for the analysis of RT-qPCR expression data von Zanardi, Nicolò, Morini, Martina, Tangaro, Marco Antonio, Zambelli, Federico, Bosco, Maria Carla, Varesio, Luigi, Eva, Alessandra, Cangelosi, Davide

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Laniakea: an open solution to provide Galaxy “on-demand” instances over heterogeneous cloud infrastructures von Tangaro, Marco Antonio, Donvito, Giacinto, Antonacci, Marica, Chiara, Matteo, Mandreoli, Pietro, Pesole, Graziano, Zambelli, Federico

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Using “Galaxy-rCASC”: A Public Galaxy Instance for Single-Cell RNA-Seq Data Analysis von Mandreoli, Pietro, Alessandri, Luca, Calogero, Raffaele A., Tangaro, Marco Antonio, Zambelli, Federico

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The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update von Afgan, Enis, Nekrutenko, Anton, Grüning, Bjórn, Blankenberg, Daniel, Goecks, Jeremy, Schatz, Michael, Ostrovsky, Alexander, Mahmoud, Alexandru, Lonie, Andrew, Syme, Anna, Fouilloux, Anne, Bretaudeau, Anthony, Kumar, Anup, Eschenlauer, Arthur, Desanto, Assunta, Guerler, Aysam, Serrano-Solano, Beatriz, Batut, Bérénice, Grüning, Björn, Langhorst, Bradley, Carr, Bridget, Raubenolt, Bryan, Hyde, Cameron, Bromhead, Catherine, Barnett, Christopher, Royaux, Coline, Gallardo, Cristóbal, Fornika, Daniel, Baker, Dannon, Bouvier, Dave, Clements, Dave, de Lima Morais, David, Tabernero, David Lopez, Lariviere, Delphine, Nasr, Engy, Zambelli, Federico, Heyl, Florian, Psomopoulos, Fotis, Coppens, Frederik, Price, Gareth, Cuccuru, Gianmauro, Corguillé, Gildas Le, von Kuster, Greg, Akbulut, Gulsum Gudukbay, Rasche, Helena, Hotz, Hans-Rudolf, Eguinoa, Ignacio, Makunin, Igor, Ranawaka, Isuru, Taylor, James, Joshi, Jayadev, Hillman-Jackson, Jennifer, Chilton, John, Kamali, Kaivan, Suderman, Keith, Poterlowicz, Krzysztof, Le Bras, Yvan, Lopez-Delisle, Lucille, Sargent, Luke, Bassetti, Madeline, Tangaro, Marco Antonio, van den Beek, Marius, Čech, Martin, Bernt, Matthias, Fahrner, Matthias, Tekman, Mehmet, Föll, Melanie, Pétéra, Mélanie, Crusoe, Michael, Roncoroni, Miguel, Kucher, Natalie, Coraor, Nate, Stoler, Nicholas, Rhodes, Nick, Soranzo, Nicola, Pinter, Niko, Goonasekera, Nuwan, Moreno, Pablo, Videm, Pavankumar, Mandreoli, Pietro, Jagtap, Pratik, Gu, Qiang, Weber, Ralf, Lazarus, Ross, Vorderman, Ruben, Hiltemann, Saskia, Golitsynskiy, Sergey, Garg, Shilpa, Bray, Simon, Gladman, Simon, Leo, Simone, Mehta, Subina, Griffin, Timothy, Jalili, Vahid, Yves, Vandenbrouck, Wen, Victor, Nagampalli, Vijay, Bacon, Wendi, de Koning, Willem, Maier, Wolfgang

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Author Correction: DOME: recommendations for supervised machine learning validation in biology von Walsh, Ian, Fishman, Dmytro, Garcia-Gasulla, Dario, Titma, Tiina, Pollastri, Gianluca, Harrow, Jennifer, Psomopoulos, Fotis E., Tosatto, Silvio C. E.

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Galaxy job runtime measurements with Encrypted and plain storage volumes on Cloud deployments von Tangaro, Marco Antonio, Zambelli, Federico

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Legal Framework for the use and re-use of health data for scientific purposes von Foggetti, Nadina, Donvito, Giacinto, Tangaro, Marco Antonio

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EOSC-Pillar Use Case 6 final report: Exploring reference data through existing computing services for the bioinformatics community von Sanaa, Yosra, Belhaj Salem, Marwa, Mathieu, Gilles, Mandreoli, Pietro, Tangaro, Marco Antonio, Donvito, Giacinto, Foggetti, Nadina, Antonacci, Marica, Blanchet, Christophe, Burlot, Laura, Lorenzo, Jonathan, Colombo, Daniele, Zambelli, Federico, Salgado, David, Béroud, Christophe

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