Daniel R. Mende
Daniel R. Mende
Asst. Professor, Amsterdam University Medical Center, University of Amsterdam
Verified email at amsterdamumc.nl
Title
Cited by
Cited by
Year
A human gut microbial gene catalogue established by metagenomic sequencing
J Qin, R Li, J Raes, M Arumugam, KS Burgdorf, C Manichanh, T Nielsen, ...
nature 464 (7285), 59-65, 2010
93742010
Enterotypes of the human gut microbiome
M Arumugam, J Raes, E Pelletier, D Le Paslier, T Yamada, DR Mende, ...
nature 473 (7346), 174-180, 2011
57392011
Structure and function of the global ocean microbiome
S Sunagawa, LP Coelho, S Chaffron, JR Kultima, K Labadie, G Salazar, ...
Science 348 (6237), 2015
13672015
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences
J Huerta-Cepas, D Szklarczyk, K Forslund, H Cook, D Heller, MC Walter, ...
Nucleic acids research 44 (D1), D286-D293, 2016
13622016
Genomic variation landscape of the human gut microbiome
S Schloissnig, M Arumugam, S Sunagawa, M Mitreva, J Tap, A Zhu, ...
Nature 493 (7430), 45-50, 2013
6782013
Potential of fecal microbiota for early‐stage detection of colorectal cancer
G Zeller, J Tap, AY Voigt, S Sunagawa, JR Kultima, PI Costea, A Amiot, ...
Molecular systems biology 10 (11), 766, 2014
5952014
eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
J Huerta-Cepas, D Szklarczyk, D Heller, A HernŠndez-Plaza, SK Forslund, ...
Nucleic acids research 47 (D1), D309-D314, 2019
5522019
Metabolic dependencies drive species co-occurrence in diverse microbial communities
A Zelezniak, S Andrejev, O Ponomarova, DR Mende, P Bork, KR Patil
Proceedings of the National Academy of Sciences 112 (20), 6449-6454, 2015
3802015
Metagenomic species profiling using universal phylogenetic marker genes
S Sunagawa, DR Mende, G Zeller, F Izquierdo-Carrasco, SA Berger, ...
Nature methods 10 (12), 1196-1199, 2013
3762013
Country-specific antibiotic use practices impact the human gut resistome
K Forslund, S Sunagawa, JR Kultima, DR Mende, M Arumugam, A Typas, ...
Genome research 23 (7), 1163-1169, 2013
3352013
Accurate and universal delineation of prokaryotic species
DR Mende, S Sunagawa, G Zeller, P Bork
Nature methods 10 (9), 881-884, 2013
2562013
Role for urea in nitrification by polar marine Archaea
L Alonso-SŠez, AS Waller, DR Mende, K Bakker, H Farnelid, PL Yager, ...
Proceedings of the National Academy of Sciences 109 (44), 17989-17994, 2012
2022012
Deciphering a global network of functionally associated post‐translational modifications
P Minguez, L Parca, F Diella, DR Mende, R Kumar, M Helmer‐Citterich, ...
Molecular systems biology 8 (1), 599, 2012
1912012
Assessment of metagenomic assembly using simulated next generation sequencing data
DR Mende, AS Waller, S Sunagawa, AI Jšrvelin, MM Chan, M Arumugam, ...
PloS one 7 (2), e31386, 2012
1882012
MOCAT: a metagenomics assembly and gene prediction toolkit
JR Kultima, S Sunagawa, J Li, W Chen, H Chen, DR Mende, ...
Public Library of Science 7 (10), e47656, 2012
1782012
Inter-individual differences in the gene content of human gut bacterial species
A Zhu, S Sunagawa, DR Mende, P Bork
Genome biology 16 (1), 1-13, 2015
1262015
Siderophore-based microbial adaptations to iron scarcity across the eastern Pacific Ocean
RM Boiteau, DR Mende, NJ Hawco, MR McIlvin, JN Fitzsimmons, ...
Proceedings of the National Academy of Sciences 113 (50), 14237-14242, 2016
1212016
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), 1-11, 2019
1102019
Environmental drivers of a microbial genomic transition zone in the ocean’s interior
DR Mende, JA Bryant, FO Aylward, JM Eppley, T Nielsen, DM Karl, ...
Nature Microbiology 2 (10), 1367-1373, 2017
832017
Diel cycling and long-term persistence of viruses in the ocean’s euphotic zone
FO Aylward, D Boeuf, DR Mende, EM Wood-Charlson, A Vislova, ...
Proceedings of the National Academy of Sciences 114 (43), 11446-11451, 2017
702017
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