Thomas Sebastian B. Schmidt

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Peer BorkDirector of EMBL HeidelbergVerified email at embl.de
Luis Pedro CoelhoCentre for Microbiome Research, Queensland University of TechnologyVerified email at qut.edu.au
Christian von MeringProfessor of Computational Biology, University of Zurich and Swiss Institute of BioinformaticsVerified email at imls.uzh.ch
Shinichi SunagawaETH Zurich; Swiss Institute of BioinformaticsVerified email at ethz.ch
Oleksandr M. MaistrenkoRoyal Netherlands Institute for Sea Research (NIOZ)Verified email at nioz.nl
Jaime Huerta-CepasGroup Leader at CBGP (UPM-INIA-CSIC), Madrid, SpainVerified email at embl.de
Daniel R. MendeAsst. Professor, Amsterdam University Medical Center, University of AmsterdamVerified email at amsterdamumc.nl
João F. Matias RodriguesUniversity of ZurichVerified email at imls.uzh.ch
Georg ZellerEMBL, HeidelbergVerified email at embl.de
Matthew Robert HaywardSenior Scientist at DSM-FirmenichVerified email at dsm.com
Askarbek N OrakovEuropean Molecular Biology Laboratory (EMBL), Bork GroupVerified email at embl.de
Anthony FullamEMBLVerified email at embl.de
Alessio MilaneseScientist, DSMVerified email at biol.ethz.ch
Sofia K. ForslundJunior Group Leader, ECRC (joint Max Delbrück Center and Charité University Hospital unit), BerlinVerified email at embl.de
Simone S LiNHMRC Early Career Fellow, Biomedicine Discovery Institute (Monash University, Australia)Verified email at monash.edu
Supriya KhedkarEuropean Molecular Biology Laboratory - EMBL HeidelbergVerified email at embl.de
Paul WilmesProfessorVerified email at uni.lu
Anna Heintz-BuschartUniversity of AmsterdamVerified email at uva.nl
Thea Van RossumSenior Bioinformatician, Koonkie IncVerified email at koonkie.com
Ina Maria DeutschmannData Scientist at xValue GmbHVerified email at xvalue.de

Thomas Sebastian B. Schmidt

School of Medicine & APC Microbiome, University College Cork

Verified email at ucc.ie - Homepage

Microbial Ecology Computational Biology Bioinformatics


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The human gut microbiome: from association to modulation TSB Schmidt, J Raes, P Bork Cell 172 (6), 1198-1215, 2018	739	2018
Extensive transmission of microbes along the gastrointestinal tract TSB Schmidt, MR Hayward, LP Coelho, SS Li, PI Costea, AY Voigt, ... elife 8, e42693, 2019	410	2019
Microbial abundance, activity and population genomic profiling with mOTUs2 A Milanese, DR Mende, L Paoli, G Salazar, HJ Ruscheweyh, M Cuenca, ... Nature communications 10 (1), 1014, 2019	377	2019
Similarity of the dog and human gut microbiomes in gene content and response to diet LP Coelho, JR Kultima, PI Costea, C Fournier, Y Pan, ... Microbiome 6, 1-11, 2018	279	2018
Disentangling the mechanisms shaping the surface ocean microbiota R Logares, IM Deutschmann, PC Junger, CR Giner, AK Krabberød, ... Microbiome 8, 1-17, 2020	189*	2020
Pseudo-transition analysis identifies the key regulators of dynamic metabolic adaptations from steady-state data L Gerosa, BRBH Van Rijsewijk, D Christodoulou, K Kochanowski, ... Cell systems 1 (4), 270-282, 2015	171	2015
Microbiota-derived hydrogen fuels Salmonella typhimurium invasion of the gut ecosystem L Maier, R Vyas, CD Cordova, H Lindsay, TSB Schmidt, S Brugiroux, ... Cell host & microbe 14 (6), 641-651, 2013	170	2013
A faecal microbiota signature with high specificity for pancreatic cancer E Kartal, TSB Schmidt, E Molina-Montes, S Rodríguez-Perales, J Wirbel, ... Gut 71 (7), 1359-1372, 2022	153	2022
Combinatorial, additive and dose-dependent drug–microbiome associations SK Forslund, R Chakaroun, M Zimmermann-Kogadeeva, L Markó, ... Nature 600 (7889), 500-505, 2021	137	2021
Microbiome and metabolome features of the cardiometabolic disease spectrum S Fromentin, SK Forslund, K Chechi, J Aron-Wisnewsky, R Chakaroun, ... Nature medicine 28 (2), 303-314, 2022	131	2022
GUNC: detection of chimerism and contamination in prokaryotic genomes A Orakov, A Fullam, LP Coelho, S Khedkar, D Szklarczyk, DR Mende, ... Genome biology 22, 1-19, 2021	126	2021
Ecological consistency of SSU rRNA-based operational taxonomic units at a global scale TSB Schmidt, JF Matias Rodrigues, C von Mering PLoS computational biology 10 (4), e1003594, 2014	126	2014
Limits to robustness and reproducibility in the demarcation of operational taxonomic units TSB Schmidt, JF Matias Rodrigues, C von Mering Environmental microbiology 17 (5), 1689-1706, 2015	125	2015
MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis JF Matias Rodrigues, TSB Schmidt, J Tackmann, C von Mering Bioinformatics 33 (23), 3808-3810, 2017	119	2017
Towards the biogeography of prokaryotic genes LP Coelho, R Alves, ÁR Del Río, PN Myers, CP Cantalapiedra, ... Nature 601 (7892), 252-256, 2022	110	2022
Analyses of dryland biological soil crusts highlight lichens as an important regulator of microbial communities S Maier, TSB Schmidt, L Zheng, T Peer, V Wagner, M Grube Biodiversity and conservation 23 (7), 1735-1755, 2014	96	2014
Drivers and determinants of strain dynamics following fecal microbiota transplantation TSB Schmidt, SS Li, OM Maistrenko, W Akanni, LP Coelho, S Dolai, ... Nature Medicine 28, 1902–1912, 2022	93	2022
Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity OM Maistrenko, DR Mende, M Luetge, F Hildebrand, TSB Schmidt, SS Li, ... The ISME journal 14 (5), 1247-1259, 2020	93	2020
Metagenomic identification of microbial signatures predicting pancreatic cancer from a multinational study N Nagata, S Nishijima, Y Kojima, Y Hisada, K Imbe, T Miyoshi-Akiyama, ... Gastroenterology 163 (1), 222-238, 2022	92	2022
proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes DR Mende, I Letunic, OM Maistrenko, TSB Schmidt, A Milanese, L Paoli, ... Nucleic Acids Research 48 (D1), D621-D625, 2020	92	2020

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