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Tommi Vatanen
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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
13262016
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
9722016
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), 583-588, 2018
9592018
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
9342015
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), 293-305, 2019
7552019
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
6992016
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), 1407-1412, 2016
5672016
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), 589-594, 2018
4752018
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), 1-12, 2017
3372017
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
2212019
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), 1-13, 2016
2112016
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
2022017
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), 1-11, 2016
2012016
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
1672016
Structure-based protein function prediction using graph convolutional networks
V Gligorijević, PD Renfrew, T Kosciolek, JK Leman, D Berenberg, ...
Nature communications 12 (1), 1-14, 2021
1472021
Genomic variation and strain-specific functional adaptation in the human gut microbiome during early life
T Vatanen, DR Plichta, J Somani, PC Münch, TD Arthur, AB Hall, S Rudolf, ...
Nature microbiology 4 (3), 470-479, 2019
1352019
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), 1-16, 2017
1242017
Language identification of short text segments with n-gram models
T Vatanen, J Väyrynen, S Virpioja
Proceedings of the Seventh International Conference on Language Resources …, 2010
1062010
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
942015
High-throughput automated microfluidic sample preparation for accurate microbial genomics
S Kim, J De Jonghe, AB Kulesa, D Feldman, T Vatanen, ...
Nature communications 8 (1), 1-10, 2017
782017
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Articles 1–20