Browsing by Author "Xavier, Ramnik J"

Now showing items 1-20 of 21

Title: A distinct clade of Bifidobacterium longum in the gut of Bangladeshi children thrives during weaning. Author: Vatanen, Tommi ; Ang, Qi Yan ; Siegwald, Léa ; Sarker, Shafiqul Alam ; Le Roy, Caroline I ; Duboux, Stéphane ; Delannoy-Bruno, Omar ; Ngom-Bru, Catherine ; Boulangé, Claire L ; Stražar, Martin ; Avila-Pacheco, Julian ; Deik, Amy ; Pierce, Kerry ; Bullock, Kevin ; Dennis, Courtney ; Sultana, Shamima ; Sayed, Sharika ; Rahman, Mahbubar ; Ahmed, Tahmeed ; Modesto, Monica ; Mattarelli, Paola ; Clish, Clary B ; Vlamakis, Hera ; Plichta, Damian R ; Sakwinska, Olga ; Xavier, Ramnik J Reference: (2022). Cell, 185(23), 4280-4297.e12.
Title: Author Correction: Gut microbiome structure and metabolic activity in inflammatory bowel disease. Author: Franzosa, Eric A ; Sirota-Madi, Alexandra ; Avila-Pacheco, Julian ; Fornelos, Nadine ; Haiser, Henry J ; Reinker, Stefan ; Vatanen, Tommi ; Hall, A Brantley ; Mallick, Himel ; McIver, Lauren J ; Sauk, Jenny S ; Wilson, Robin G ; Stevens, Betsy W ; Scott, Justin M ; Pierce, Kerry ; Deik, Amy A ; Bullock, Kevin ; Imhann, Floris ; Porter, Jeffrey A ; Zhernakova, Alexandra ; Fu, Jingyuan ; Weersma, Rinse K ; Wijmenga, Cisca ; Clish, Clary B ; Vlamakis, Hera ; Huttenhower, Curtis ; Xavier, Ramnik J Date: (2019-05)
Title: The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes Author: Kostic, Aleksandar D ; Gevers, Dirk ; Siljander, Heli ; Vatanen, Tommi ; Hyötyläinen, Tuulia ; Hämäläinen, Anu-Maaria ; Peet, Aleksandr ; Tillmann, Vallo ; Pöhö, Päivi ; Mattila, Ismo ; Lähdesmäki, Harri ; Franzosa, Eric A ; Vaarala, Outi ; de Goffau, Marcus ; Harmsen, Hermie ; Ilonen, Jorma ; Virtanen, Suvi M ; Clish, Clary B ; Orešič, Matej ; Huttenhower, Curtis ; Knip, Mikael ; Xavier, Ramnik J Date: (2016-07)
Title: The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. Author: Kostic, Aleksandar D ; Gevers, Dirk ; Siljander, Heli ; Vatanen, Tommi ; Hyötyläinen, Tuulia ; Hämäläinen, Anu-Maaria ; Peet, Aleksandr ; Tillmann, Vallo ; Pöhö, Päivi ; Mattila, Ismo ; Lähdesmäki, Harri ; Franzosa, Eric A ; Vaarala, Outi ; de Goffau, Marcus ; Harmsen, Hermie ; Ilonen, Jorma ; Virtanen, Suvi M ; Clish, Clary B ; Orešič, Matej ; Huttenhower, Curtis ; Knip, Mikael ; DIABIMMUNE Study Group ; Xavier, Ramnik J Date: (2015-02-05)
Title: Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease. Author: Shaw, Kelly A ; Bertha, Madeline ; Hofmekler, Tatyana ; Chopra, Pankaj ; Vatanen, Tommi ; Srivatsa, Abhiram ; Prince, Jarod ; Kumar, Archana ; Sauer, Cary ; Zwick, Michael E ; Satten, Glen A ; Kostic, Aleksandar D ; Mulle, Jennifer G ; Xavier, Ramnik J ; Kugathasan, Subra Date: (2016-07-13)
Title: Dysregulation of secondary bile acid metabolism precedes islet autoimmunity and type 1 diabetes. Author: Lamichhane, Santosh ; Sen, Partho ; Dickens, Alex M ; Alves, Marina Amaral ; Härkönen, Taina ; Honkanen, Jarno ; Vatanen, Tommi ; Xavier, Ramnik J ; Hyötyläinen, Tuulia ; Knip, Mikael ; Orešič, Matej Reference: (2022). Cell reports. Medicine, 3(10), 100762-.
Title: The effect of host genetics on the gut microbiome. Author: Bonder, Marc Jan ; Kurilshikov, Alexander ; Tigchelaar, Ettje F ; Mujagic, Zlatan ; Imhann, Floris ; Vila, Arnau Vich ; Deelen, Patrick ; Vatanen, Tommi ; Schirmer, Melanie ; Smeekens, Sanne P ; Zhernakova, Daria V ; Jankipersadsing, Soesma A ; Jaeger, Martin ; Oosting, Marije ; Cenit, Maria Carmen ; Masclee, Ad AM ; Swertz, Morris A ; Li, Yang ; Kumar, Vinod ; Joosten, Leo ; Harmsen, Hermie ; Weersma, Rinse K ; Franke, Lude ; Hofker, Marten H ; Xavier, Ramnik J ; Jonkers, Daisy ; Netea, Mihai G ; Wijmenga, Cisca ; Fu, Jingyuan ; Zhernakova, Alexandra Date: (2016-11)
Title: Elevated rates of horizontal gene transfer in the industrialized human microbiome. Author: Groussin, Mathieu ; Poyet, Mathilde ; Sistiaga, Ainara ; Kearney, Sean M ; Moniz, Katya ; Noel, Mary ; Hooker, Jeff ; Gibbons, Sean M ; Segurel, Laure ; Froment, Alain ; Mohamed, Rihlat Said ; Fezeu, Alain ; Juimo, Vanessa A ; Lafosse, Sophie ; Tabe, Francis E ; Girard, Catherine ; Iqaluk, Deborah ; Nguyen, Le Thanh Tu ; Shapiro, B Jesse ; Lehtimäki, Jenni ; Ruokolainen, Lasse ; Kettunen, Pinja P ; Vatanen, Tommi ; Sigwazi, Shani ; Mabulla, Audax ; Domínguez-Rodrigo, Manuel ; Nartey, Yvonne A ; Agyei-Nkansah, Adwoa ; Duah, Amoako ; Awuku, Yaw A ; Valles, Kenneth A ; Asibey, Shadrack O ; Afihene, Mary Y ; Roberts, Lewis R ; Plymoth, Amelie ; Onyekwere, Charles A ; Summons, Roger E ; Xavier, Ramnik J ; Alm, Eric J Reference: Cell 184(8):2053-2067.e18 Apr 2021
Title: Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life. Author: Vatanen, Tommi ; Plichta, Damian R ; Somani, Juhi ; Münch, Philipp C ; Arthur, Timothy D ; Hall, Andrew Brantley ; Rudolf, Sabine ; Oakeley, Edward J ; Ke, Xiaobo ; Young, Rachel A ; Haiser, Henry J ; Kolde, Raivo ; Yassour, Moran ; Luopajärvi, Kristiina ; Siljander, Heli ; Virtanen, Suvi M ; Ilonen, Jorma ; Uibo, Raivo ; Tillmann, Vallo ; Mokurov, Sergei ; Dorshakova, Natalya ; Porter, Jeffrey A ; McHardy, Alice C ; Lähdesmäki, Harri ; Vlamakis, Hera ; Huttenhower, Curtis ; Knip, Mikael ; Xavier, Ramnik J Date: (2019-03)
Title: Gut microbiome structure and metabolic activity in inflammatory bowel disease. Author: Franzosa, Eric A ; Sirota-Madi, Alexandra ; Avila-Pacheco, Julian ; Fornelos, Nadine ; Haiser, Henry J ; Reinker, Stefan ; Vatanen, Tommi ; Hall, A Brantley ; Mallick, Himel ; McIver, Lauren J ; Sauk, Jenny S ; Wilson, Robin G ; Stevens, Betsy W ; Scott, Justin M ; Pierce, Kerry ; Deik, Amy A ; Bullock, Kevin ; Imhann, Floris ; Porter, Jeffrey A ; Zhernakova, Alexandra ; Fu, Jingyuan ; Weersma, Rinse K ; Wijmenga, Cisca ; Clish, Clary B ; Vlamakis, Hera ; Huttenhower, Curtis ; Xavier, Ramnik J Date: (2019-02)
Title: Increased Intestinal Microbial Diversity Following Fecal Microbiota Transplant for Active Crohn's Disease. Author: Vaughn, Byron P ; Vatanen, Tommi ; Allegretti, Jessica R ; Bai, Aiping ; Xavier, Ramnik J ; Korzenik, Joshua ; Gevers, Dirk ; Ting, Amanda ; Robson, Simon C ; Moss, Alan C Date: (2016-09)
Title: Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children. Author: Zhao, Guoyan ; Vatanen, Tommi ; Droit, Lindsay ; Park, Arnold ; Kostic, Aleksandar D ; Poon, Tiffany W ; Vlamakis, Hera ; Siljander, Heli ; Härkönen, Taina ; Hämäläinen, Anu-Maaria ; Peet, Aleksandr ; Tillmann, Vallo ; Ilonen, Jorma ; Wang, David ; Knip, Mikael ; Xavier, Ramnik J ; Virgin, Herbert W Reference: Proceedings of the National Academy of Sciences of the United States of America 114(30):E6166-E6175 25 Jul 2017
Title: Linking Strain Engraftment in Fecal Microbiota Transplantation With Maintenance of Remission in Crohn's Disease. Author: Kong, Lingjia ; Lloyd-Price, Jason ; Vatanen, Tommi ; Seksik, Philippe ; Beaugerie, Laurent ; Simon, Tabassome ; Vlamakis, Hera ; Sokol, Harry ; Xavier, Ramnik J Reference: Gastroenterology 159(6):2193-2202.e5 Dec 2020
Title: Mobile genetic elements from the maternal microbiome shape infant gut microbial assembly and metabolism. Author: Vatanen, Tommi ; Jabbar, Karolina S ; Ruohtula, Terhi ; Honkanen, Jarno ; Avila-Pacheco, Julian ; Siljander, Heli ; Stražar, Martin ; Oikarinen, Sami ; Hyöty, Heikki ; Ilonen, Jorma ; Mitchell, Caroline M ; Yassour, Moran ; Virtanen, Suvi M ; Clish, Clary B ; Plichta, Damian R ; Vlamakis, Hera ; Knip, Mikael ; Xavier, Ramnik J Reference: (2022). Cell, 185(26), 4921-4936.e15.
Title: Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability. Author: Yassour, Moran ; Vatanen, Tommi ; Siljander, Heli ; Hämäläinen, Anu-Maaria ; Härkönen, Taina ; Ryhänen, Samppa J ; Franzosa, Eric A ; Vlamakis, Hera ; Huttenhower, Curtis ; Gevers, Dirk ; Lander, Eric S ; Knip, Mikael ; DIABIMMUNE Study Group ; Xavier, Ramnik J Date: (2016-06)
Title: A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients. Author: Hall, Andrew Brantley ; Yassour, Moran ; Sauk, Jenny ; Garner, Ashley ; Jiang, Xiaofang ; Arthur, Timothy ; Lagoudas, Georgia K ; Vatanen, Tommi ; Fornelos, Nadine ; Wilson, Robin ; Bertha, Madeline ; Cohen, Melissa ; Garber, John ; Khalili, Hamed ; Gevers, Dirk ; Ananthakrishnan, Ashwin N ; Kugathasan, Subra ; Lander, Eric S ; Blainey, Paul ; Vlamakis, Hera ; Xavier, Ramnik J ; Huttenhower, Curtis Date: (2017-11-28)
Title: Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity. Author: Zhernakova, Alexandra ; Kurilshikov, Alexander ; Bonder, Marc Jan ; Tigchelaar, Ettje F ; Schirmer, Melanie ; Vatanen, Tommi ; Mujagic, Zlatan ; Vila, Arnau Vich ; Falony, Gwen ; Vieira-Silva, Sara ; Wang, Jun ; Imhann, Floris ; Brandsma, Eelke ; Jankipersadsing, Soesma A ; Joossens, Marie ; Cenit, Maria Carmen ; Deelen, Patrick ; Swertz, Morris A ; LifeLines cohort study ; Weersma, Rinse K ; Feskens, Edith JM ; Netea, Mihai G ; Gevers, Dirk ; Jonkers, Daisy ; Franke, Lude ; Aulchenko, Yurii S ; Huttenhower, Curtis ; Raes, Jeroen ; Hofker, Marten H ; Xavier, Ramnik J ; Wijmenga, Cisca ; Fu, Jingyuan Date: (2016-04-28)
Title: Publisher Correction: Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life. Author: Vatanen, Tommi ; Plichta, Damian R ; Somani, Juhi ; Münch, Philipp C ; Arthur, Timothy D ; Hall, Andrew Brantley ; Rudolf, Sabine ; Oakeley, Edward J ; Ke, Xiaobo ; Young, Rachel A ; Haiser, Henry J ; Kolde, Raivo ; Yassour, Moran ; Luopajärvi, Kristiina ; Siljander, Heli ; Virtanen, Suvi M ; Ilonen, Jorma ; Uibo, Raivo ; Tillmann, Vallo ; Mokurov, Sergei ; Dorshakova, Natalya ; Porter, Jeffrey A ; McHardy, Alice C ; Lähdesmäki, Harri ; Vlamakis, Hera ; Huttenhower, Curtis ; Knip, Mikael ; Xavier, Ramnik J Date: (2019-03)
Title: Structure-based protein function prediction using graph convolutional networks. Author: Gligorijević, Vladimir ; Renfrew, P Douglas ; Kosciolek, Tomasz ; Leman, Julia Koehler ; Berenberg, Daniel ; Vatanen, Tommi ; Chandler, Chris ; Taylor, Bryn C ; Fisk, Ian M ; Vlamakis, Hera ; Xavier, Ramnik J ; Knight, Rob ; Cho, Kyunghyun ; Bonneau, Richard Reference: Nature communications 12(1):3168 26 May 2021
Title: Temporal development of the gut microbiome in early childhood from the TEDDY study. Author: Stewart, Christopher J ; Ajami, Nadim J ; O'Brien, Jacqueline L ; Hutchinson, Diane S ; Smith, Daniel P ; Wong, Matthew C ; Ross, Matthew C ; Lloyd, Richard E ; Doddapaneni, HarshaVardhan ; Metcalf, Ginger A ; Muzny, Donna ; Gibbs, Richard A ; Vatanen, Tommi ; Huttenhower, Curtis ; Xavier, Ramnik J ; Rewers, Marian ; Hagopian, William ; Toppari, Jorma ; Ziegler, Anette-G ; She, Jin-Xiong ; Akolkar, Beena ; Lernmark, Ake ; Hyoty, Heikki ; Vehik, Kendra ; Krischer, Jeffrey P ; Petrosino, Joseph F Date: (2018-10-24)

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Browsing by Author "Xavier, Ramnik J"

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