Tommi Vatanen
Tommi Vatanen
Research fellow, Liggins Institute, University of Auckland
Verified email at broadinstitute.org
TitleCited byYear
Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity
A Zhernakova, A Kurilshikov, MJ Bonder, EF Tigchelaar, M Schirmer, ...
Science 352 (6285), 565-569, 2016
5552016
The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes
AD Kostic, D Gevers, H Siljander, T Vatanen, T Hyötyläinen, ...
Cell host & microbe 17 (2), 260-273, 2015
5272015
Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans
T Vatanen, AD Kostic, E d’Hennezel, H Siljander, EA Franzosa, ...
Cell 165 (4), 842-853, 2016
4632016
Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability
M Yassour, T Vatanen, H Siljander, AM Hämäläinen, T Härkönen, ...
Science translational medicine 8 (343), 343ra81-343ra81, 2016
2982016
The effect of host genetics on the gut microbiome
MJ Bonder, A Kurilshikov, EF Tigchelaar, Z Mujagic, F Imhann, AV Vila, ...
Nature genetics 48 (11), 1407, 2016
2532016
Temporal development of the gut microbiome in early childhood from the TEDDY study
CJ Stewart, NJ Ajami, JL O’Brien, DS Hutchinson, DP Smith, MC Wong, ...
Nature 562 (7728), 583, 2018
1202018
Dysbiosis, inflammation, and response to treatment: a longitudinal study of pediatric subjects with newly diagnosed inflammatory bowel disease
KA Shaw, M Bertha, T Hofmekler, P Chopra, T Vatanen, A Srivatsa, ...
Genome medicine 8 (1), 75, 2016
1002016
The influence of a short-term gluten-free diet on the human gut microbiome
MJ Bonder, EF Tigchelaar, X Cai, G Trynka, MC Cenit, B Hrdlickova, ...
Genome medicine 8 (1), 45, 2016
842016
The human gut microbiome in early-onset type 1 diabetes from the TEDDY study
T Vatanen, EA Franzosa, R Schwager, S Tripathi, TD Arthur, K Vehik, ...
Nature 562 (7728), 589, 2018
792018
Intestinal virome changes precede autoimmunity in type I diabetes-susceptible children
G Zhao, T Vatanen, L Droit, A Park, AD Kostic, TW Poon, H Vlamakis, ...
Proceedings of the National Academy of Sciences 114 (30), E6166-E6175, 2017
772017
Language Identification of Short Text Segments with N-gram Models.
T Vatanen, JJ Väyrynen, S Virpioja
LREC, 2010
752010
Increased intestinal microbial diversity following fecal microbiota transplant for active Crohn's disease
BP Vaughn, T Vatanen, JR Allegretti, A Bai, RJ Xavier, J Korzenik, ...
Inflammatory bowel diseases 22 (9), 2182-2190, 2016
732016
A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients
AB Hall, M Yassour, J Sauk, A Garner, X Jiang, T Arthur, GK Lagoudas, ...
Genome medicine 9 (1), 103, 2017
672017
Gut microbiome structure and metabolic activity in inflammatory bowel disease
EA Franzosa, A Sirota-Madi, J Avila-Pacheco, N Fornelos, HJ Haiser, ...
Nature microbiology 4 (2), 293, 2019
552019
Self-organization and missing values in SOM and GTM
T Vatanen, M Osmala, T Raiko, K Lagus, M Sysi-Aho, M Orešič, T Honkela, ...
Neurocomputing 147, 60-70, 2015
532015
High-throughput automated microfluidic sample preparation for accurate microbial genomics
S Kim, J De Jonghe, AB Kulesa, D Feldman, T Vatanen, ...
Nature communications 8, 13919, 2017
402017
Experimental design and quantitative analysis of microbial community multiomics
H Mallick, S Ma, EA Franzosa, T Vatanen, XC Morgan, C Huttenhower
Genome biology 18 (1), 228, 2017
322017
The super-donor phenomenon in fecal microbiota transplantation
BC Wilson, T Vatanen, WS Cutfield, JM O'Sullivan
Frontiers in cellular and infection microbiology 9, 2, 2019
312019
Semi-Supervised Detection of Collective Anomalies with an Application in High Energy Particle Physics
T Vatanen, M Kuusela, E Malmi, T Raiko, T Aaltonen, Y Nagai
IJCNN 2012, 2012
202012
Pushing stochastic gradient towards second-order methods–backpropagation learning with transformations in nonlinearities
T Vatanen, T Raiko, H Valpola, Y LeCun
International Conference on Neural Information Processing, 442-449, 2013
142013
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