Thomas, Andrew Maltez
Thomas, Andrew Maltez
A microbiota-modulated checkpoint directs immunosuppressive intestinal T cells into cancers
2023-01-01 Fidelle, Marine; Rauber, Conrad; Alves Costa Silva, Carolina; Tian, Ai-Ling; Lahmar, Imran; de La Varende, Anne-Laure Mallard; Zhao, Liwei; Thelemaque, Cassandra; Lebhar, Isabelle; Messaoudene, Meriem; Pizzato, Eugenie; Birebent, Roxanne; Mbogning Fonkou, Maxime Descartes; Zoppi, Silvia; Reni, Anna; Dalban, Cécile; Leduc, Marion; Ferrere, Gladys; Durand, Sylvère; Ly, Pierre; Silvin, Aymeric; Mulder, Kevin; Dutertre, Charles-Antoine; Ginhoux, Florent; Yonekura, Satoru; Roberti, Maria Paula; Tidjani-Alou, Maryam; Terrisse, Safae; Chen, Jianzhou; Kepp, Oliver; Schippers, Angela; Wagner, Norbert; Suárez-Gosálvez, Javier; Kobold, Sebastian; Fahrner, Jean-Eudes; Richard, Corentin; Bosq, Jacques; Lordello, Leonardo; Vitali, Giacomo; Galleron, Nathalie; Quinquis, Benoît; Le Chatelier, Emmanuelle; Blanchard, Lucas; Girard, Jean-Philippe; Jarry, Anne; Gervois, Nadine; Godefroy, Emmanuelle; Labarrière, Nathalie; Koschny, Ronald; Daillère, Romain; Besse, Benjamin; Truntzer, Caroline; Ghiringhelli, François; Coatnoan, Nicolas; Mhanna, Vanessa; Klatzmann, David; Drubay, Damien; Albiges, Laurence; Thomas, Andrew Maltez; Segata, Nicola; Danlos, François-Xavier; Marabelle, Aurélien; Routy, Bertrand; Derosa, Lisa; Kroemer, Guido; Zitvogel, Laurence
Altered fecal small RNA profiles in colorectal cancer reflect gut microbiome composition in stool samples
2019-01-01 Tarallo, S.; Ferrero, G.; Gallo, G.; Francavilla, A.; Clerico, G.; Luc, A. R.; Manghi, P.; Thomas, A. M.; Vineis, P.; Segata, N.; Pardini, B.; Naccarati, A.; Cordero, F.
Association of a Mediterranean Diet With Outcomes for Patients Treated With Immune Checkpoint Blockade for Advanced Melanoma
2023-01-01 Bolte, Laura A; Lee, Karla A; Björk, Johannes R; Leeming, Emily R; Campmans-Kuijpers, Marjo J E; de Haan, Jacco J; Vila, Arnau Vich; Maltez-Thomas, Andrew; Segata, Nicola; Board, Ruth; Harries, Mark; Lorigan, Paul; de Vries, Elisabeth G E; Nathan, Paul; Fehrmann, Rudolf; Bataille, Véronique; Spector, Tim D; Hospers, Geke A P; Weersma, Rinse K
Circulating inflammatory proteins associate with response to immune checkpoint inhibition therapy in patients with advanced melanoma
2022-01-01 Rossi, Niccolò; Lee, Karla A; Bermudez, Maria V; Visconti, Alessia; Thomas, Andrew Maltez; Bolte, Laura A; Björk, Johannes R; de Ruijter, Laura Kist; Newton-Bishop, Julia; Harland, Mark; Shaw, Heather M; Harries, Mark; Sacco, Joseph; Board, Ruth; Lorigan, Paul; de Vries, Elisabeth G E; Segata, Nicola; Taams, Leonie; Papa, Sophie; Spector, Tim D; Nathan, Paul; Weersma, Rinse K; Hospers, Geke A P; Fehrmann, Rudolf S N; Bataille, Veronique; Falchi, Mario
Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma
2022-01-01 Lee, Karla A; Thomas, Andrew Maltez; Bolte, Laura A; Björk, Johannes R; de Ruijter, Laura Kist; Armanini, Federica; Asnicar, Francesco; Blanco-Miguez, Aitor; Board, Ruth; Calbet-Llopart, Neus; Derosa, Lisa; Dhomen, Nathalie; Brooks, Kelly; Harland, Mark; Harries, Mark; Leeming, Emily R; Lorigan, Paul; Manghi, Paolo; Marais, Richard; Newton-Bishop, Julia; Nezi, Luigi; Pinto, Federica; Potrony, Miriam; Puig, Susana; Serra-Bellver, Patricio; Shaw, Heather M; Tamburini, Sabrina; Valpione, Sara; Vijay, Amrita; Waldron, Levi; Zitvogel, Laurence; Zolfo, Moreno; de Vries, Elisabeth G E; Nathan, Paul; Fehrmann, Rudolf S N; Bataille, Véronique; Hospers, Geke A P; Spector, Tim D; Weersma, Rinse K; Segata, Nicola
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
Faecal microbiota transplantation for the treatment of diarrhoea induced by tyrosine-kinase inhibitors in patients with metastatic renal cell carcinoma
2020-01-01 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
Genes Encoding Microbial Acyl Coenzyme A Binding Protein/Diazepam-Binding Inhibitor Orthologs Are Rare in the Human Gut Microbiome and Show No Links to Obesity
2021-01-01 Thomas, A. M.; Asnicar, F.; Kroemer, G.; Segata, N.
Genes Encoding Microbial Acyl Coenzyme A Binding Protein/Diazepam-Binding Inhibitor Orthologs Are Rare in the Human Gut Microbiome and Show No Links to Obesity
2021-01-01 Thomas, A. M.; Asnicar, F.; Kroemer, G.; Segata, N.
Gut OncoMicrobiome Signatures (GOMS) as next-generation biomarkers for cancer immunotherapy
2023-01-01 Thomas, Andrew Maltez; Fidelle, Marine; Routy, Bertrand; Kroemer, Guido; Wargo, Jennifer A; Segata, Nicola; Zitvogel, Laurence
Immune system and intestinal microbiota determine efficacy of androgen deprivation therapy against prostate cancer
2022-01-01 Terrisse, Safae; Goubet, Anne-Gaelle; Ueda, Kousuke; Thomas, Andrew Maltez; Quiniou, Valentin; Thelemaque, Cassandra; Dunsmore, Garett; Clave, Emmanuel; Gamat-Huber, Melissa; Yonekura, Satoru; Ferrere, Gladys; Rauber, Conrad; Pham, Hang Phuong; Fahrner, Jean-Eudes; Pizzato, Eugenie; Ly, Pierre; Fidelle, Marine; Mazzenga, Marine; Costa Silva, Carolina Alves; Armanini, Federica; Pinto, Federica; Asnicar, Francesco; Daillère, Romain; Derosa, Lisa; Richard, Corentin; Blanchard, Pierre; Routy, Bertrand; Culine, Stéphane; Opolon, Paule; Silvin, Aymeric; Ginhoux, Florent; Toubert, Antoine; Segata, Nicola; Mcneel, Douglas G; Fizazi, Karim; Kroemer, Guido; Zitvogel, Laurence
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3
2021-01-01 Beghini, Francesco; Mciver, Lauren J; Blanco-Míguez, 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
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
Intestinal microbiota influences clinical outcome and side effects of early breast cancer treatment
2021-01-01 Terrisse, Safae; Derosa, Lisa; Iebba, Valerio; Ghiringhelli, François; Vaz-Luis, Ines; Kroemer, Guido; Fidelle, Marine; Christodoulidis, Stergios; Segata, Nicola; Thomas, Andrew Maltez; Martin, Anne-Laure; Sirven, Aude; Everhard, Sibille; Aprahamian, Fanny; Nirmalathasan, Nitharsshini; Aarnoutse, Romy; Smidt, Marjolein; Ziemons, Janine; Caldas, Carlos; Loibl, Sibylle; Denkert, Carsten; Durand, Sylvere; Iglesias, Claudia; Pietrantonio, Filippo; Routy, Bertrand; André, Fabrice; Pasolli, Edoardo; Delaloge, Suzette; Zitvogel, Laurence
Machine learning for microbiologists
2024-01-01 Asnicar, F.; Thomas, A. M.; Passerini, Andrea; Waldron, L.; Segata, N.
Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer
2019-01-01 Wirbel, Jakob; Pyl, Paul Theodor; Kartal, Ece; Zych, Konrad; Kashani, Alireza; Milanese, Alessio; Fleck, Jonas S.; Voigt, Anita Y.; Palleja, Albert; Ponnudurai, Ruby; Sunagawa, Shinichi; Coelho, Luis Pedro; Schrotz-King, Petra; Vogtmann, Emily; Habermann, Nina; Niméus, Emma; Thomas, Andrew M.; Manghi, Paolo; Gandini, Sara; Serrano, Davide; Mizutani, Sayaka; Shiroma, Hirotsugu; Shiba, Satoshi; Shibata, Tatsuhiro; Yachida, Shinichi; Yamada, Takuji; Waldron, Levi; Naccarati, Alessio; Segata, Nicola; Sinha, Rashmi; Ulrich, Cornelia M.; Brenner, Hermann; Arumugam, Manimozhiyan; Bork, Peer; Zeller, Georg
Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation
2019-01-01 Thomas, Andrew Maltez; Manghi, Paolo; Asnicar, Francesco; Pasolli, Edoardo; Armanini, Federica; Zolfo, Moreno; Beghini, Francesco; Manara, Serena; Karcher, Nicolai; Pozzi, Chiara; Gandini, Sara; Serrano, Davide; Tarallo, Sonia; Francavilla, Antonio; Gallo, Gaetano; Trompetto, Mario; Ferrero, Giulio; Mizutani, Sayaka; Shiroma, Hirotsugu; Shiba, Satoshi; Shibata, Tatsuhiro; Yachida, Shinichi; Yamada, Takuji; Wirbel, Jakob; Schrotz-King, Petra; Ulrich, Cornelia M.; Brenner, Hermann; Arumugam, Manimozhiyan; Bork, Peer; Zeller, Georg; Cordero, Francesca; Dias-Neto, Emmanuel; Setubal, João Carlos; Tett, Adrian; Pardini, Barbara; Rescigno, Maria; Waldron, Levi; Naccarati, Alessio; Segata, Nicola
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
Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals
2021-01-01 Asnicar, Francesco; Berry, Sarah E.; Valdes, Ana M.; Nguyen, Long H.; Piccinno, Gianmarco; Drew, David A.; Leeming, Emily; Gibson, Rachel; Le Roy, Caroline; Khatib, Haya Al; Francis, Lucy; Mazidi, Mohsen; Mompeo, Olatz; Valles-Colomer, Mireia; Tett, Adrian; Beghini, Francesco; Dubois, Léonard; Bazzani, Davide; Thomas, Andrew Maltez; Mirzayi, Chloe; Khleborodova, Asya; Oh, Sehyun; Hine, Rachel; Bonnett, Christopher; Capdevila, Joan; Danzanvilliers, Serge; Giordano, Francesca; Geistlinger, Ludwig; Waldron, Levi; Davies, Richard; Hadjigeorgiou, George; Wolf, Jonathan; Ordovás, José M.; Gardner, Christopher; Franks, Paul W.; Chan, Andrew T.; Huttenhower, Curtis; Spector, Tim D.; Segata, Nicola
Multiple levels of the unknown in microbiome research
2019-01-01 Thomas, Andrew Maltez; Segata, N.