Probiotics, gut microbiota, and their influence on host health and disease von Sánchez, Borja, Delgado, Susana, Blanco‐Míguez, Aitor, Lourenço, Anália, Gueimonde, Miguel, Margolles, Abelardo

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Faecal microbiota transplantation for the treatment of diarrhoea induced by tyrosine-kinase inhibitors in patients with metastatic renal cell carcinoma von Ianiro, Gianluca, Rossi, Ernesto, Thomas, Andrew M., Schinzari, Giovanni, Masucci, Luca, Quaranta, Gianluca, Settanni, Carlo Romano, Lopetuso, Loris Riccardo, Armanini, Federica, Blanco-Miguez, Aitor, Asnicar, Francesco, Consolandi, Clarissa, Iacovelli, Roberto, Sanguinetti, Maurizio, Tortora, Giampaolo, Gasbarrini, Antonio, Segata, Nicola, Cammarota, Giovanni

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BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results von Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Sánchez, Borja, Lourenço, Anália

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Microbiota-Derived beta-Amyloid-like Peptides Trigger Alzheimer's Disease-Related Pathways in the SH-SY5Y Neural Cell Line von Blanco-Miguez, Aitor, Tames, Hector, Ruas-Madiedo, Patricia, Sanchez, Borja

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Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3 von Beghini, Francesco, McIver, Lauren J., Blanco-Miguez, Aitor, Dubois, Leonard, Asnicar, Francesco, Maharjan, Sagun, Mailyan, Ana, Manghi, Paolo, Scholz, Matthias, Thomas, Andrew Maltez, Valles-Colomer, Mireia, Weingart, George, Zhang, Yancong, Zolfo, Moreno, Huttenhower, Curtis, Franzosa, Eric A., Segata, Nicola

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Targeted depletion of pks + bacteria from a fecal microbiota using specific antibodies von Blanco-Míguez, Aitor, Marcos-Fernández, Raquel, Guadamuro-García, Lucía, Fdez-Riverola, Florentino, Cubiella, Joaquín, Lourenço, Anália, Margolles, Abelardo, Sánchez, Borja

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In Silico Screening of the Human Gut Metaproteome Identifies Th17-Promoting Peptides Encrypted in Proteins of Commensal Bacteria von Hidalgo-Cantabrana, Claudio, Moro-García, Marco A., Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Lourenço, Anália, Alonso-Arias, Rebeca, Sánchez, Borja

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The person-to-person transmission landscape of the gut and oral microbiomes von Valles-Colomer, Mireia, Blanco-Míguez, Aitor, Manghi, Paolo, Asnicar, Francesco, Dubois, Leonard, Golzato, Davide, Armanini, Federica, Cumbo, Fabio, Huang, Kun D., Manara, Serena, Masetti, Giulia, Pinto, Federica, Piperni, Elisa, Punčochář, Michal, Ricci, Liviana, Zolfo, Moreno, Farrant, Olivia, Goncalves, Adriana, Selma-Royo, Marta, Binetti, Ana G., Becerra, Jimmy E., Han, Bei, Lusingu, John, Amuasi, John, Amoroso, Loredana, Visconti, Alessia, Steves, Claire M., Falchi, Mario, Filosi, Michele, Tett, Adrian, Last, Anna, Xu, Qian, Qin, Nan, Qin, Huanlong, May, Jürgen, Eibach, Daniel, Corrias, Maria Valeria, Ponzoni, Mirco, Pasolli, Edoardo, Spector, Tim D., Domenici, Enrico, Collado, Maria Carmen, Segata, Nicola

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The extracellular proteins of Lactobacillus acidophilus DSM 20079T display anti-inflammatory effect in both in piglets, healthy human donors and Crohn’s Disease patients von Hidalgo-Cantabrana, Claudio, Moro-García, Marco Antonio, Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Oliván, Mamen, Royo, Luis J., Riestra, Sabino, Margolles, Abelardo, Lourenço, Anália, Alonso-Arias, Rebeca, Sánchez, Borja

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Improving phylogeny reconstruction at the strain level using peptidome datasets von Blanco-Míguez, Aitor, Meier-Kolthoff, Jan P., Gutiérrez-Jácome, Alberto, Göker, Markus, Fdez-Riverola, Florentino, Sánchez, Borja, Lourenço, Anália

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Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period von Maixner, Frank, Sarhan, Mohamed S., Huang, Kun D., Tett, Adrian, Schoenafinger, Alexander, Zingale, Stefania, Blanco-Míguez, Aitor, Manghi, Paolo, Cemper-Kiesslich, Jan, Rosendahl, Wilfried, Kusebauch, Ulrike, Morrone, Seamus R., Hoopmann, Michael R., Rota-Stabelli, Omar, Rattei, Thomas, Moritz, Robert L., Oeggl, Klaus, Segata, Nicola, Zink, Albert, Reschreiter, Hans, Kowarik, Kerstin

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Automated identification of sequence-tailored Cas9 proteins using massive metagenomic data von Ciciani, Matteo, Demozzi, Michele, Pedrazzoli, Eleonora, Visentin, Elisabetta, Pezzè, Laura, Signorini, Lorenzo Federico, Blanco-Miguez, Aitor, Zolfo, Moreno, Asnicar, Francesco, Casini, Antonio, Cereseto, Anna, Segata, Nicola

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Intestinal Blastocystis is linked to healthier diets and more favorable cardiometabolic outcomes in 56,989 individuals from 32 countries von Piperni, Elisa, Nguyen, Long H., Manghi, Paolo, Kim, Hanseul, Pasolli, Edoardo, Andreu-Sánchez, Sergio, Arrè, Alberto, Bermingham, Kate M., Blanco-Míguez, Aitor, Manara, Serena, Valles-Colomer, Mireia, Bakker, Elco, Busonero, Fabio, Davies, Richard, Fiorillo, Edoardo, Giordano, Francesca, Hadjigeorgiou, George, Leeming, Emily R., Lobina, Monia, Masala, Marco, Maschio, Andrea, McIver, Lauren J., Pala, Mauro, Pitzalis, Maristella, Wolf, Jonathan, Fu, Jingyuan, Zhernakova, Alexandra, Cacciò, Simone M., Cucca, Francesco, Berry, Sarah E., Ercolini, Danilo, Chan, Andrew T., Huttenhower, Curtis, Spector, Tim D., Segata, Nicola, Asnicar, Francesco

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Resources and tools for the high-throughput, multi-omic study of intestinal microbiota von Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Sánchez, Borja, Lourenço, Anália

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Improved sampling and DNA extraction procedures for microbiome analysis in food-processing environments von Barcenilla, Coral, Cobo-Díaz, José F., De Filippis, Francesca, Valentino, Vincenzo, Cabrera Rubio, Raul, O’Neil, Dominic, Mahler de Sanchez, Lisa, Armanini, Federica, Carlino, Niccolò, Blanco-Míguez, Aitor, Pinto, Federica, Calvete-Torre, Inés, Sabater, Carlos, Delgado, Susana, Ruas-Madiedo, Patricia, Quijada, Narciso M., Dzieciol, Monika, Skírnisdóttir, Sigurlaug, Knobloch, Stephen, Puente, Alba, López, Mercedes, Prieto, Miguel, Marteinsson, Viggó Thór, Wagner, Martin, Margolles, Abelardo, Segata, Nicola, Cotter, Paul D., Ercolini, Danilo, Alvarez-Ordóñez, Avelino

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Cell wall hydrolase as a surface-associated protein target for the specific detection of Lactobacillus rhamnosus using flow cytometry von Marcos-Fernández, Raquel, Ruiz, Lorena, Blanco-Míguez, Aitor, Margolles, Abelardo, Sánchez, Borja

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P4P: a peptidome-based strain-level genome comparison web tool von Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Lourenço, Anália, Sánchez, Borja

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DEWE: A novel tool for executing differential expression RNA-Seq workflows in biomedical research von López-Fernández, Hugo, Blanco-Míguez, Aitor, Fdez-Riverola, Florentino, Sánchez, Borja, Lourenço, Anália

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MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice von Manghi, Paolo, Blanco-Míguez, Aitor, Manara, Serena, NabiNejad, Amir, Cumbo, Fabio, Beghini, Francesco, Armanini, Federica, Golzato, Davide, Huang, Kun D., Thomas, Andrew M., Piccinno, Gianmarco, Punčochář, Michal, Zolfo, Moreno, Lesker, Till R., Bredon, Marius, Planchais, Julien, Glodt, Jeremy, Valles-Colomer, Mireia, Koren, Omry, Pasolli, Edoardo, Asnicar, Francesco, Strowig, Till, Sokol, Harry, Segata, Nicola

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Outer Membrane Vesicles From The Gut Microbiome Contribute to Tumor Immunity by Eliciting Cross-Reactive T Cells von Tomasi, Michele, Caproni, Elena, Benedet, Mattia, Zanella, Ilaria, Giorgetta, Sebastiano, Dalsass, Mattia, König, Enrico, Gagliardi, Assunta, Fantappiè, Laura, Berti, Alvise, Tamburini, Silvia, Croia, Lorenzo, Di Lascio, Gabriele, Bellini, Erika, Valensin, Silvia, Licata, Giada, Sebastiani, Guido, Dotta, Francesco, Armanini, Federica, Cumbo, Fabio, Asnicar, Francesco, Blanco-Míguez, Aitor, Ruggiero, Eliana, Segata, Nicola, Grandi, Guido, Grandi, Alberto

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