The Super-Donor Phenomenon in Fecal Microbiota Transplantation

par Wilson, Brooke C., Vatanen, Tommi, Cutfield, Wayne S., O'Sullivan, Justin M.
Publié dans Front Cell Infect Microbiol (2019)

Experimental design and quantitative analysis of microbial community multiomics

par Mallick, Himel, Ma, Siyuan, Franzosa, Eric A., Vatanen, Tommi, Morgan, Xochitl C., Huttenhower, Curtis
Publié dans Genome Biol (2017)

An additive Gaussian process regression model for interpretable non-parametric analysis of longitudinal data

par Cheng, Lu, Ramchandran, Siddharth, Vatanen, Tommi, Lietzén, Niina, Lahesmaa, Riitta, Vehtari, Aki, Lähdesmäki, Harri
Publié dans Nat Commun (2019)

The microbial biogeography of the gastrointestinal tract of preterm and term lambs

par Chong, Clara Yieh Lin, Vatanen, Tommi, Oliver, Mark, Bloomfield, Frank H., O’Sullivan, Justin M.
Publié dans Sci Rep (2020)

Factors Associated With the Microbiome in Moderate–Late Preterm Babies: A Cohort Study From the DIAMOND Randomized Controlled Trial

par Chong, Clara Yieh Lin, Vatanen, Tommi, Alexander, Tanith, Bloomfield, Frank H., O’Sullivan, Justin M.
Publié dans Front Cell Infect Microbiol (2021)

Desacetyl-α-MSH and α-MSH have sex specific interactions with diet to influence mouse gut morphology, metabolites and microbiota

par Sun, Bo, Vatanen, Tommi, Jayasinghe, Thilini N., McKenzie, Elizabeth, Murphy, Rinki, O’Sullivan, Justin M.
Publié dans Sci Rep (2020)

Randomised Double-Blind Placebo-Controlled Trial of Inulin with Metronidazole in Non-Alcoholic Fatty Liver Disease (NAFLD)

par Chong, Clara Yieh Lin, Orr, David, Plank, Lindsay D., Vatanen, Tommi, O’Sullivan, Justin M., Murphy, Rinki
Publié dans Nutrients (2020)

Linking strain engraftment in fecal microbiota transplantation with maintenance of remission in Crohn’s disease

par Kong, Lingjia, Lloyd-Price, Jason, Vatanen, Tommi, Seksik, Philippe, Beaugerie, Laurent, Simon, Tabassome, Vlamakis, Hera, Sokol, Harry, Xavier, Ramnik J.
Publié dans Gastroenterology (2020)

Increased Intestinal Microbial Diversity following Fecal Microbiota Transplant for Active Crohn’s Disease

par 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
Publié dans Inflamm Bowel Dis (2016)

High-throughput automated microfluidic sample preparation for accurate microbial genomics

par Kim, Soohong, De Jonghe, Joachim, Kulesa, Anthony B., Feldman, David, Vatanen, Tommi, Bhattacharyya, Roby P., Berdy, Brittany, Gomez, James, Nolan, Jill, Epstein, Slava, Blainey, Paul C.
Publié dans Nat Commun (2017)

The influence of a short-term gluten-free diet on the human gut microbiome

par Bonder, Marc Jan, Tigchelaar, Ettje F., Cai, Xianghang, Trynka, Gosia, Cenit, Maria C., Hrdlickova, Barbara, Zhong, Huanzi, Vatanen, Tommi, Gevers, Dirk, Wijmenga, Cisca, Wang, Yang, Zhernakova, Alexandra
Publié dans Genome Med (2016)

Natural history of the infant gut microbiome and impact of antibiotic treatments on strain-level diversity and stability

par 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, Xavier, Ramnik J
Publié dans Sci Transl Med (2016)

Oral administration of maternal vaginal microbes at birth to restore gut microbiome development in infants born by caesarean section: A pilot randomised placebo-controlled trial

par Wilson, Brooke C., Butler, Éadaoin M., Grigg, Celia P., Derraik, José G.B., Chiavaroli, Valentina, Walker, Nicholas, Thampi, Suma, Creagh, Christine, Reynolds, Abigail J., Vatanen, Tommi, O'Sullivan, Justin M., Cutfield, Wayne S.
Publié dans EBioMedicine (2021)

Structure-based protein function prediction using graph convolutional networks

par 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
Publié dans Nat Commun (2021)

Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease

par 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
Publié dans Genome Med (2016)

Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children

par 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.
Publié dans Proc Natl Acad Sci U S A (2017)

Protocol for the Gut Bugs Trial: a randomised double-blind placebo-controlled trial of gut microbiome transfer for the treatment of obesity in adolescents

par Leong, Karen S W, Jayasinghe, Thilini N, Derraik, José G B, Albert, Benjamin B, Chiavaroli, Valentina, Svirskis, Darren M, Beck, Kathryn L, Conlon, Cathryn A, Jiang, Yannan, Schierding, William, Vatanen, Tommi, Holland, David J, O’Sullivan, Justin M, Cutfield, Wayne S
Publié dans BMJ Open (2019)

High prevalence of undiagnosed comorbidities among adolescents with obesity

par Leong, Karen S. W., Jayasinghe, Thilini N., Wilson, Brooke C., Derraik, José G. B., Albert, Benjamin B., Chiavaroli, Valentina, Svirskis, Darren M., Beck, Kathryn L., Conlon, Cathryn A., Jiang, Yannan, Schierding, William, Vatanen, Tommi, Holland, David J., O’Sullivan, Justin M., Cutfield, Wayne S.
Publié dans Sci Rep (2020)

Effects of Fecal Microbiome Transfer in Adolescents With Obesity: The Gut Bugs Randomized Controlled Trial

par Leong, Karen S. W., Jayasinghe, Thilini N., Wilson, Brooke C., Derraik, José G. B., Albert, Benjamin B., Chiavaroli, Valentina, Svirskis, Darren M., Beck, Kathryn L., Conlon, Cathryn A., Jiang, Yannan, Schierding, William, Vatanen, Tommi, Holland, David J., O’Sullivan, Justin M., Cutfield, Wayne S.
Publié dans JAMA Netw Open (2020)

Strain engraftment competition and functional augmentation in a multi-donor fecal microbiota transplantation trial for obesity

par Wilson, Brooke C., Vatanen, Tommi, Jayasinghe, Thilini N., Leong, Karen S. W., Derraik, José G. B., Albert, Benjamin B., Chiavaroli, Valentina, Svirskis, Darren M., Beck, Kathryn L., Conlon, Cathryn A., Jiang, Yannan, Schierding, William, Holland, David J., Cutfield, Wayne S., O’Sullivan, Justin M.
Publié dans Microbiome (2021)