MicroRNA Target Identification: Revisiting Accessibility and Seed Anchoring von Homberg, Nicolas, Galvão Ferrarini, Mariana, Gaspin, Christine, Sagot, Marie-France

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MOOMIN – Mathematical explOration of ’Omics data on a MetabolIc Network von Pusa, Taneli, Ferrarini, Mariana Galvão, Andrade, Ricardo, Mary, Arnaud, Marchetti-Spaccamela, Alberto, Stougie, Leen, Sagot, Marie-France

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A comprehensive evaluation of binning methods to recover human gut microbial species from a non-redundant reference gene catalog von Borderes, Marianne, Gasc, Cyrielle, Prestat, Emmanuel, Galvão Ferrarini, Mariana, Vinga, Susana, Boucinha, Lilia, Sagot, Marie-France

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Investigating the Human Host-ssRNA Virus Interaction Landscape Using the SMEAGOL Toolbox von Lal, Avantika, Galvao Ferrarini, Mariana, Gruber, Andreas J

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BrumiR: A toolkit for de novo discovery of microRNAs from sRNA-seq data von Moraga, Carol, Sanchez, Evelyn, Ferrarini, Mariana Galvão, Gutierrez, Rodrigo A, Vidal, Elena A, Sagot, Marie-France

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Hydrogen peroxide production and myo‐inositol metabolism as important traits for virulence of Mycoplasma hyopneumoniae von Ferrarini, Mariana Galvão, Mucha, Scheila Gabriele, Parrot, Delphine, Meiffrein, Guillaume, Ruggiero Bachega, Jose Fernando, Comte, Gilles, Zaha, Arnaldo, Sagot, Marie‐France

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Spatial and morphological reorganization of endosymbiosis during metamorphosis accommodates adult metabolic requirements in a weevil von Maire, Justin, Parisot, Nicolas, Ferrarini, Mariana Galvao, Vallier, Agnès, Gillet, Benjamin, Hughes, Sandrine, Balmand, Séverine, Vincent-Monégat, Carole, Zaidman-Rémy, Anna, Heddi, Abdelaziz

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Trypanosoma cruzi eIF4E3- and eIF4E4-containing complexes bind different mRNAs and may sequester inactive mRNAs during nutritional stress von Gabiatti, Bernardo Papini, Freire, Eden Ribeiro, Ferreira da Costa, Jimena, Ferrarini, Mariana Galvão, Reichert Assunção de Matos, Tatiana, Preti, Henrique, Munhoz da Rocha, Isadora, Guimarães, Beatriz Gomes, Kramer, Susanne, Zanchin, Nilson Ivo Tonin, Holetz, Fabíola Barbieri

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Inter-Strain Epigenomic Profiling Reveals a Candidate IAP Master Copy in C3H Mice von Rebollo, Rita, Galvão-Ferrarini, Mariana, Gagnier, Liane, Zhang, Ying, Ferraj, Ardian, Beck, Christine R, Lorincz, Matthew C, Mager, Dixie L

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Efficient compartmentalization in insect bacteriomes protects symbiotic bacteria from host immune system von Ferrarini, Mariana Galvão, Dell’Aglio, Elisa, Vallier, Agnès, Balmand, Séverine, Vincent-Monégat, Carole, Hughes, Sandrine, Gillet, Benjamin, Parisot, Nicolas, Zaidman-Rémy, Anna, Vieira, Cristina, Heddi, Abdelaziz, Rebollo, Rita

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Intestinal GCN2 controls Drosophila systemic growth in response to Lactiplantibacillus plantarum symbiotic cues encoded by r/tRNA operons von Grenier, Théodore, Consuegra, Jessika, Ferrarini, Mariana G, Akherraz, Houssam, Bai, Longwei, Dusabyinema, Yves, Rahioui, Isabelle, Da Silva, Pedro, Gillet, Benjamin, Hughes, Sandrine, Ramos, Cathy I, Matos, Renata C, Leulier, François

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Endosymbiont-containing germarium transcriptional survey in a cereal weevil depicts downregulation of immune effectors at the onset of sexual maturity von Ferrarini, Mariana Galvão, Vallier, Agnès, Dell'Aglio, Elisa, Balmand, Séverine, Vincent-Monégat, Carole, Debbache, Mériem, Maire, Justin, Parisot, Nicolas, Zaidman-Rémy, Anna, Heddi, Abdelaziz, Rebollo, Rita

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Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis von Ferrarini, Mariana G., Lal, Avantika, Rebollo, Rita, Gruber, Andreas J., Guarracino, Andrea, Gonzalez, Itziar Martinez, Floyd, Taylor, de Oliveira, Daniel Siqueira, Shanklin, Justin, Beausoleil, Ethan, Pusa, Taneli, Pickett, Brett E., Aguiar-Pulido, Vanessa

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Coordination of host and endosymbiont gene expression governs endosymbiont growth and elimination in the cereal weevil Sitophilus spp von Ferrarini, Mariana Galvão, Vallier, Agnès, Vincent-Monégat, Carole, Dell'Aglio, Elisa, Gillet, Benjamin, Hughes, Sandrine, Hurtado, Ophélie, Condemine, Guy, Zaidman-Rémy, Anna, Rebollo, Rita, Parisot, Nicolas, Heddi, Abdelaziz

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Phenotypic and Transcriptomic Responses to Stress Differ According to Population Geography in an Invasive Species von Marin, Pierre, Jaquet, Angelo, Picarle, Justine, Fablet, Marie, Merel, Vincent, Delignette-Muller, Marie-Laure, Ferrarini, Mariana Galvão, Gibert, Patricia, Vieira, Cristina

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Totoro: Identifying Active Reactions During the Transient State for Metabolic Perturbations von Galvão Ferrarini, Mariana, Ziska, Irene, Andrade, Ricardo, Julien-Laferrière, Alice, Duchemin, Louis, César, Jr, Roberto Marcondes, Mary, Arnaud, Vinga, Susana, Sagot, Marie-France

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Mycoplasma hyopneumoniae J elicits an antioxidant response and decreases the expression of ciliary genes in infected swine epithelial cells von Mucha, Scheila G., Ferrarini, Mariana G., Moraga, Carol, Di Genova, Alex, Guyon, Laurent, Tardy, Florence, Rome, Sophie, Sagot, Marie-France, Zaha, Arnaldo

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Modulation of Klebsiella pneumoniae Outer Membrane Vesicle Protein Cargo under Antibiotic Treatment von Lucena, Aline Castro Rodrigues, Ferrarini, Mariana Galvão, de Oliveira, Willian Klassen, Marcon, Bruna Hilzendeger, Morello, Luis Gustavo, Alves, Lysangela Ronalte, Faoro, Helisson

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Insights on the virulence of swine respiratory tract mycoplasmas through genome-scale metabolic modeling von Ferrarini, Mariana G, Siqueira, Franciele M, Mucha, Scheila G, Palama, Tony L, Jobard, Élodie, Elena-Herrmann, Bénédicte, R Vasconcelos, Ana T, Tardy, Florence, Schrank, Irene S, Zaha, Arnaldo, Sagot, Marie-France

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Transcriptomic-based selection of reference genes for quantitative real-time PCR in an insect endosymbiotic model von Vallier, Agnès, Dell’Aglio, Elisa, Ferrarini, Mariana Galvão, Hurtado, Ophélie, Vincent-Monégat, Carole, Heddi, Abdelaziz, Rebollo, Rita, Zaidman-Rémy, Anna

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