Daniel R. Mende - Google Scholar Citations

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Citations	17813	12907
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Co-authors

Peer BorkEMBLVerified email at embl.de
Shinichi SunagawaAssistant Professor of Microbiome Research, Institute of Microbiology, ETH ZurichVerified email at ethz.ch
Manimozhiyan ArumugamAssociate Professor, Faculty of Health and Medical Sciences, University of CopenhagenVerified email at sund.ku.dk
Jaime Huerta-CepasGroup Leader at CBGP (UPM-INIA), Madrid, SpainVerified email at embl.de
edward francis delongProfessor, University of Hawaii, ManoaVerified email at hawaii.edu
Jens Roat KultimaDirector of Bioinformatics at Clinical MicrobiomicsVerified email at clinical-microbiomics.com
Sofia K. ForslundJunior Group Leader, ECRC (joint Max Delbrück Center and Charité University Hospital unit), BerlinVerified email at embl.de
Christian von MeringProfessor of Computational Biology, University of Zurich and Swiss Institute of BioinformaticsVerified email at imls.uzh.ch
Alison S. WallerBrock UniversityVerified email at brocku.ca
Georg ZellerEMBL, HeidelbergVerified email at embl.de
Julien TapDanone ResearchVerified email at danone.com
Luis Pedro CoelhoISTBI, Fudan UniversityVerified email at fudan.edu.cn
Damian SzklarczykSIB Swiss Institute of Bioinformatics / University of ZurichVerified email at isb-sib.ch
Vera van Noortprofessor, KULeuvenVerified email at biw.kuleuven.be
Nassos TypasGroup Leader, EMBLVerified email at embl.de
Jeroen RaesProfessor, Faculty of Medicine, Rega Institute, KU Leuven; Group Leader Microbiome, VIB, BelgiumVerified email at med.kuleuven.be
George WeinstockDirector of Microbial Genomics, Professor, Jackson LaboratoryVerified email at jax.org
Shamil SunyaevProfessor of Biomedical Informatics and of Medicine (BWH), Harvard Medical SchoolVerified email at rics.bwh.harvard.edu
Søren BrunakProfessor of Disease Systems Biology, University of CopenhagenVerified email at cpr.ku.dk
Alexandros StamatakisHeidelberg Institute for Theoretical Studies and Karlsruhe Institute of TechnologyVerified email at h-its.org

Daniel R. Mende

Asst. Professor, Amsterdam University Medical Center, University of Amsterdam

Verified email at amsterdamumc.nl

Computational Biology Bioinformatics Evolution Clinical Microbiology


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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	7787	2010
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	4800	2011
Structure and function of the global ocean microbiome S Sunagawa, LP Coelho, S Chaffron, JR Kultima, K Labadie, G Salazar, ... Science 348 (6237), 1261359, 2015	971	2015
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	944	2016
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	549	2013
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), 2014	452	2014
Metagenomic species profiling using universal phylogenetic marker genes S Sunagawa, DR Mende, G Zeller, F Izquierdo-Carrasco, SA Berger, ... Nature methods 10 (12), 1196, 2013	307	2013
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	285	2015
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	285	2013
Accurate and universal delineation of prokaryotic species DR Mende, S Sunagawa, G Zeller, P Bork Nature methods 10 (9), 881, 2013	217	2013
Role for urea in nitrification by polar marine Archaea L Alonso-Sáez, AS Waller, DR Mende, K Bakker, H Farnelid, PL Yager, ... Proceedings of the National Academy of Sciences 109 (44), 17989-17994, 2012	178	2012
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), 2012	164	2012
Assessment of metagenomic assembly using simulated next generation sequencing data DR Mende, AS Waller, S Sunagawa, AI Järvelin, MM Chan, M Arumugam, ... PloS one 7 (2), 2012	156	2012
MOCAT: a metagenomics assembly and gene prediction toolkit JR Kultima, S Sunagawa, J Li, W Chen, H Chen, DR Mende, ... PloS one 7 (10), 2012	150	2012
Inter-individual differences in the gene content of human gut bacterial species A Zhu, S Sunagawa, DR Mende, P Bork Genome biology 16 (1), 82, 2015	97	2015
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 Hernández-Plaza, SK Forslund, ... Nucleic acids research 47 (D1), D309-D314, 2019	88	2019
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	85	2016
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	51	2017
proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes DR Mende, I Letunic, J Huerta-Cepas, SS Li, K Forslund, S Sunagawa, ... Nucleic acids research, gkw989, 2016	47	2016
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	40	2017

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