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Browsing by Author "Futami, Ricardo"

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Browsing by Author "Futami, Ricardo"

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    A membrane computing simulator of trans-hierarchical antibiotic resistance evolution dynamics in nested ecological compartments (ARES) 
    Campos Frances, Marcelino; Llorens, Carlos; Sempere Luna, José María; Futami, Ricardo; Rodríguez, Irene; Carrasco, Purificación; Capilla, Rafael; Latorre, Amparo; Coque, Teresa M.; Moya, Andrés; Baquero, Fernando (BioMed Central, 2015)
    In this article, we introduce ARES (Antibiotic Resistance Evolution Simulator) a software device that simulates P-system model scenarios with five types of nested computing membranes oriented to emulate a hierarchy of ...
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    Client Applications and Server-Side Docker for Management of RNASeq and/or VariantSeq Workflows and Pipelines of the GPRO Suite 
    Hafez, Ahmed Ibrahem; Soriano, Beatriz; Elsayed, Aya Allah; Futami, Ricardo; Ceprian, Raquel; Ramos-Ruiz, Ricardo; Martínez, Genis; Roig, Francisco Jose; Torres-Font, Miguel Ángel; Naya-Catala, Fernando; Calduch-Giner, Josep Alvar; Trilla-Fuertes, Lucia; Gamez-Pozo, Angelo; Arnau, Vicente; Sempere Luna, José María; Perez-Sanchez, Jaume; Gabaldon, Toni; Llorens, Carlos (MDPI, 2023-02)
    [EN] The GPRO suite is an in-progress bioinformatic project for -omics data analysis. As part of the continued growth of this project, we introduce a client- and server-side solution for comparative transcriptomics and ...
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    GyDB mobilomics: LTR retroelements and integrase-related transposons of the pea aphid Acyrthosiphon pisum genome 
    Bernet, Guillermo P.; Muñoz-Pomer, Alfonso; Domínguez-Escribá, Laura; Covelli, Laura; Bernad, Lucía; Ramasamy, Sukanya; Futami, Ricardo; Sempere Luna, José María; Moya, Andrés; Llorens, Carlos (Landes Bioscience, 2011)
    [EN] The Gypsy Database concerning Mobile Genetic Elements (release 2.0) is a wiki-style project devoted to the phylogenetic classification of LTR retroelements and their viral and host gene relatives characterized from ...
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    Simulating Multilevel Dynamics of Antimicrobial Resistance in a Membrane Computing Model 
    Campos Frances, Marcelino; Capilla, Rafael; Naya, Fernando; Futami, Ricardo; Coque, Teresa; Moya, Andrés; Fernández-Lanza, Val; Cantón, Rafael; Sempere Luna, José María; Llorens, Carlos; Baquero, Fernando (American Society for Microbiology, 2019-02)
    [EN] Membrane computing is a bio-inspired computing paradigm whose devices are the so-called membrane systems or P systems. The P system designed in this work reproduces complex biological landscapes in the computer world. ...
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    The Gypsy Database (GyDB) of mobile genetic elements: release 2.0 
    Llorens, Carlos; Futami, Ricardo; Covelli, Laura; Domínguez-Escriba, Laura; Viu, Jose M.; Tamarit, Daniel; Aguilar-Rodríguez, Jose; Vicente Ripollés, Miguel; Fuster, Gonzalo; Bernet, Guillermo P; Maumus, Florian; Munoz-Pomer, Alfonso; Sempere Luna, José María; Latorre, Amparo; Moya, Andres (Oxford University Press (OUP): Policy C - Option B, 2011)
    This article introduces the second release of the Gypsy Database of Mobile Genetic Elements (GyDB 2.0): a research project devoted to the evolutionary dynamics of viruses and transposable elements based on their phylogenetic ...