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p13CMFA: Parsimonious 13C metabolic flux analysis.Foguet C, Jayaraman A, Marin S, Selivanov VA, Moreno P, Messeguer R, de Atauri P, Cascante M.PLoS Comput Biol Volume 15 (2019) p.e1007310 Automated structure prediction of trans-acyltransferase polyketide synthase products.Helfrich EJN, Ueoka R, Dolev A, Rust M, Meoded RA, Bhushan A, Califano G, Costa R, Gugger M, Steinbeck C, Moreno P, Piel J.Nat Chem Biol Volume 15 (2019) p.813-821 Scalable data analysis in proteomics and metabolomics using BioContainers and workflows engines Perez-Riverol Y, Moreno P.Volume (2019) p. PhenoMeNal: processing and analysis of metabolomics data in the cloud.Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M, de Atauri P, Ebbels TMD, Foguet C, Glen R, Gonzalez-Beltran A, Günther UL, Handakas E, Hankemeier T, Haug K, Herman S, Holub P, Izzo M, Jacob D, Johnson D, Jourdan F, Kale N, Karaman I, Khalili B, Emami Khonsari P, Kultima K, Lampa S, Larsson A, Ludwig C, Moreno P, Neumann S, Novella JA, O'Donovan C, Pearce JTM, Peluso A, Piras ME, Pireddu L, Reed MAC, Rocca-Serra P, Roger P, Rosato A, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Selivanov V, Spjuth O, Schober D, Thévenot EA, Tomasoni M, van Rijswijk M, van Vliet M, Viant MR, Weber RJM, Zanetti G, Steinbeck C.Gigascience Volume 8 (2019) p. Galaxy-Kubernetes integration: scaling bioinformatics workflows in the cloud Moreno P, Pireddu L, Roger P, Goonasekera N, Afgan E, van den Beek M, He S, Larsson A, Schober D, Ruttkies C, Johnson D, Rocca-Serra P, Weber RJ, Gruening B, Salek RM, Kale N, Perez-Riverol Y, Papatheodorou I, Spjuth O, Neumann S.Volume (2018) p. PhenoMeNal: Processing and analysis of Metabolomics data in the Cloud Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M, de Atauri P, Ebbels TMD, Foguet C, Glen R, Gonzalez-Beltran A, Guenther U, Handakas E, Hankemeier T, Haug K, Herman S, Holub P, Izzo M, Jacob D, Johnson D, Jourdan F, Kale N, Karaman I, Khalili B, Khonsari PE, Kultima K, Lampa S, Larsson A, Ludwig C, Moreno P, Neumann S, Novella JA, O’Donovan C, Pearce JT, Peluso A, Pireddu L, Piras ME, Reed MA, Rocca-Serra P, Roger P, Rosato A, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone S, Selivanov V, Spjuth O, Schober D, Thévenot EA, Tomasoni M, van Rijswijk M, van Vliet M, Viant MR, Weber RJM, Zanetti G, Steinbeck C.Volume (2018) p. Approaches for containerized scientific workflows in cloud environments with applications in life science Spjuth O, Capuccini M, Carone M, Larsson A, Schaal W, Novella J, Di Tommaso P, Notredame C, Moreno P, Khoonsari PE, Herman S, Kultima K, Lampa S.Volume (2018) p. High-Definition Analysis of Host Protein Stability during Human Cytomegalovirus Infection Reveals Antiviral Factors and Viral Evasion Mechanisms.Nightingale K, Lin KM, Ravenhill BJ, Davies C, Nobre L, Fielding CA, Ruckova E, Fletcher-Etherington A, Soday L, Nichols H, Sugrue D, Wang ECY, Moreno P, Umrania Y, Huttlin EL, Antrobus R, Davison AJ, Wilkinson GWG, Stanton RJ, Tomasec P, Weekes MP.Cell Host Microbe Volume 24 (2018) p.447-460.e11 Recommendations for the packaging and containerizing of bioinformatics software Gruening B, Sallou O, Moreno P, da Veiga Leprevost F, Ménager H, Søndergaard D, Röst H, Sachsenberg T, O'Connor B, Madeira F, Dominguez Del Angel V, Crusoe MR, Varma S, Blankenberg D, Jimenez RC, Perez-Riverol Y, BioContainers Community.Volume (2018) p. PhenoMeNal: Metabolomics data analysis in the cloud Pireddu L, Moreno P.Volume (2018) p. The future of metabolomics in ELIXIR van Rijswijk M, Beirnaert C, Caron C, Cascante M, Dominguez V, Dunn WB, Ebbels TMD, Giacomoni F, Gonzalez-Beltran A, Hankemeier T, Haug K, Izquierdo-Garcia JL, Jimenez RC, Jourdan F, Kale N, Klapa MI, Kohlbacher O, Koort K, Kultima K, Le Corguillé G, Moreno P, Moschonas NK, Neumann S, O’Donovan C, Reczko M, Rocca-Serra P, Rosato A, Salek RM, Sansone S, Satagopam V, Schober D, Shimmo R, Spicer RA, Spjuth O, Thévenot EA, Viant MR, Weber RJM, Willighagen EL, Zanetti G, Steinbeck C.Volume (2017) p. Interoperable and scalable data analysis with microservices: Applications in Metabolomics Emami Khoonsari P, Moreno P, Bergmann S, Burman J, Capuccini M, Carone M, Cascante M, de Atauri P, Foguet C, Gonzalez-Beltran A, Hankemeier T, Haug K, He S, Herman S, Johnson D, Kale N, Larsson A, Neumann S, Peters K, Pireddu L, Rocca-Serra P, Roger P, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone S, Schober D, Selivanov V, Thévenot EA, van Vliet M, Zanetti G, Steinbeck C, Kultima K, Spjuth O.Volume (2017) p. Functional SNP allele discovery (fSNPd): an approach to find highly penetrant, environmental-triggered genotypes underlying complex human phenotypes.Stouffer K, Nahorski M, Moreno P, Sarveswaran N, Menon D, Lee M, Geoffrey Woods C.BMC Genomics Volume 18 (2017) p.944 Navigating freely-available software tools for metabolomics analysis.Spicer R, Salek RM, Moreno P, Cañueto D, Steinbeck C.Metabolomics Volume 13 (2017) p.106 Automated assembly of species metabolomes through data submission into a public repository.Salek RM, Conesa P, Cochrane K, Haug K, Williams M, Kale N, Moreno P, Jayaseelan KV, Macias JR, Nainala VC, Hall RD, Reed LK, Viant MR, O'Donovan C, Steinbeck C.Gigascience Volume 6 (2017) p.1-4 mzML2ISA & nmrML2ISA: generating enriched ISA-Tab metadata files from metabolomics XML data.Larralde M, Lawson TN, Weber RJM, Moreno P, Haug K, Rocca-Serra P, Viant MR, Steinbeck C, Salek RM.Bioinformatics Volume 33 (2017) p.2598-2600 PhenoMeNal: accessing metabolomics workflows in Galaxy Kale N, He S, Moreno P.Volume (2017) p. BioContainers: an open-source and community-driven framework for software standardization.da Veiga Leprevost F, Grüning BA, Alves Aflitos S, Röst HL, Uszkoreit J, Barsnes H, Vaudel M, Moreno P, Gatto L, Weber J, Bai M, Jimenez RC, Sachsenberg T, Pfeuffer J, Vera Alvarez R, Griss J, Nesvizhskii AI, Perez-Riverol Y.Bioinformatics Volume 33 (2017) p.2580-2582 Urinary Exosomes Contain MicroRNAs Capable of Paracrine Modulation of Tubular Transporters in Kidney.Gracia T, Wang X, Su Y, Norgett EE, Williams TL, Moreno P, Micklem G, Karet Frankl FE.Sci Rep Volume 7 (2017) p.40601