Cumbo, Fabio
Cumbo, Fabio
A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity
2020-01-01 Wylensek, David; Hitch, Thomas C A; Riedel, Thomas; Afrizal, Afrizal; Kumar, Neeraj; Wortmann, Esther; Liu, Tianzhe; Devendran, Saravanan; Lesker, Till R; Hernández, Sara B; Heine, Viktoria; Buhl, Eva M; M D'Agostino, Paul; Cumbo, Fabio; Fischöder, Thomas; Wyschkon, Marzena; Looft, Torey; Parreira, Valeria R; Abt, Birte; Doden, Heidi L; Ly, Lindsey; Alves, João M P; Reichlin, Markus; Flisikowski, Krzysztof; Suarez, Laura Navarro; Neumann, Anthony P; Suen, Garret; de Wouters, Tomas; Rohn, Sascha; Lagkouvardos, Ilias; Allen-Vercoe, Emma; Spröer, Cathrin; Bunk, Boyke; Taverne-Thiele, Anja J; Giesbers, Marcel; Wells, Jerry M; Neuhaus, Klaus; Schnieke, Angelika; Cava, Felipe; Segata, Nicola; Elling, Lothar; Strowig, Till; Ridlon, Jason M; Gulder, Tobias A M; Overmann, Jörg; Clavel, Thomas
Commensal Bifidobacterium Strains Enhance the Efficacy of Neo-Epitope Based Cancer Vaccines
2021-01-01 Tomasi, Michele; Dalsass, Mattia; Beghini, Francesco; Zanella, Ilaria; Caproni, Elena; Fantappiè, Laura; Gagliardi, Assunta; Irene, Carmela; König, Enrico; Frattini, Luca; Masetti, Giulia; Isaac, Samine Jessica; Armanini, Federica; Cumbo, Fabio; Blanco-Míguez, Aitor; Grandi, Alberto; Segata, Nicola; Grandi, Guido
Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4
2023-01-01 Blanco-Míguez, Aitor; Beghini, Francesco; Cumbo, Fabio; Mciver, Lauren J.; Thompson, Kelsey N.; Zolfo, Moreno; Manghi, Paolo; Dubois, Leonard; Huang, Kun D.; Thomas, Andrew Maltez; Nickols, William A.; Piccinno, Gianmarco; Piperni, Elisa; Punčochář, Michal; Valles-Colomer, Mireia; Tett, Adrian; Giordano, Francesca; Davies, Richard; Wolf, Jonathan; Berry, Sarah E.; Spector, Tim D.; Franzosa, Eric A.; Pasolli, Edoardo; Asnicar, Francesco; Huttenhower, Curtis; Segata, Nicola
Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly
2021-01-01 Karcher, N.; Nigro, E.; Puncochar, M.; Blanco-Miguez, A.; Ciciani, M.; Manghi, P.; Zolfo, M.; Cumbo, F.; Manara, S.; Golzato, D.; Cereseto, A.; Arumugam, M.; Bui, T. P. N.; Tytgat, H. L. P.; Valles-Colomer, M.; de Vos, W. M.; Segata, N.
Intestinal Akkermansia muciniphila predicts clinical response to PD-1 blockade in patients with advanced non-small-cell lung cancer
2022-01-01 Derosa, Lisa; Routy, Bertrand; Thomas, Andrew Maltez; Iebba, Valerio; Zalcman, Gerard; Friard, Sylvie; Mazieres, Julien; Audigier-Valette, Clarisse; Moro-Sibilot, Denis; Goldwasser, François; Silva, Carolina Alves Costa; Terrisse, Safae; Bonvalet, Melodie; Scherpereel, Arnaud; Pegliasco, Hervé; Richard, Corentin; Ghiringhelli, François; Elkrief, Arielle; Desilets, Antoine; Blanc-Durand, Felix; Cumbo, Fabio; Blanco, Aitor; Boidot, Romain; Chevrier, Sandy; Daillère, Romain; Kroemer, Guido; Alla, Laurie; Pons, Nicolas; Le Chatelier, Emmanuelle; Galleron, Nathalie; Roume, Hugo; Dubuisson, Agathe; Bouchard, Nicole; Messaoudene, Meriem; Drubay, Damien; Deutsch, Eric; Barlesi, Fabrice; Planchard, David; Segata, Nicola; Martinez, Stéphanie; Zitvogel, Laurence; Soria, Jean-Charles; Besse, Benjamin
Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome
2020-01-01 Pasolli, E.; De Filippis, F.; Mauriello, I. E.; Cumbo, F.; Walsh, A. M.; Leech, J.; Cotter, P. D.; Segata, N.; Ercolini, D.
MetaPhlAn 4 profiling of unknown species-level genome bins improves the characterization of diet-associated microbiome changes in mice
2023-01-01 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
Microbial genomes from non-human primate gut metagenomes expand the primate-associated bacterial tree of life with over 1000 novel species
2019-01-01 Manara, Serena; Asnicar, Francesco; Beghini, Francesco; Bazzani, Davide; Cumbo, Fabio; Zolfo, Moreno; Nigro, Eleonora; Karcher, Nicolai; Manghi, Paolo; Metzger, Marisa Isabell; Pasolli, Edoardo; Segata, Nicola
Population-level impacts of antibiotic usage on the human gut microbiome
2023-01-01 Lee, Kihyun; Raguideau, Sebastien; Sirén, Kimmo; Asnicar, Francesco; Cumbo, Fabio; Hildebrand, Falk; Segata, Nicola; Cha, Chang-Jun; Quince, Christopher
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes using PhyloPhlAn 3.0
2020-01-01 Asnicar, Francesco; Thomas, Andrew Maltez; Beghini, Francesco; Mengoni, Claudia; Manara, Serena; Manghi, Paolo; Zhu, Qiyun; Bolzan, Mattia; Cumbo, Fabio; May, Uyen; Sanders, Jon G.; Zolfo, Moreno; Kopylova, Evguenia; Pasolli, Edoardo; Knight, Rob; Mirarab, Siavash; Huttenhower, Curtis; Segata, Nicola
The person-to-person transmission landscape of the gut and oral microbiomes
2023-01-01 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
Variability of strain engraftment and predictability of microbiome composition after fecal microbiota transplantation across different diseases
2022-01-01 Ianiro, Gianluca; Punčochář, Michal; Karcher, Nicolai; Porcari, Serena; Armanini, Federica; Asnicar, Francesco; Beghini, Francesco; Blanco-Míguez, Aitor; Cumbo, Fabio; Manghi, Paolo; Pinto, Federica; Masucci, Luca; Quaranta, Gianluca; De Giorgi, Silvia; Sciumè, Giusi Desirè; Bibbò, Stefano; Del Chierico, Federica; Putignani, Lorenza; Sanguinetti, Maurizio; Gasbarrini, Antonio; Valles-Colomer, Mireia; Cammarota, Giovanni; Segata, Nicola