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Investigating bacterial strain evolution through metagenomic genome assemblies

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Publications

Durable coexistence of donor and recipient strains after fecal microbiota transplantation

Author(s): S. S. Li, A. Zhu, V. Benes, P. I. Costea, R. Hercog, F. Hildebrand, J. Huerta-Cepas, M. Nieuwdorp, J. Salojarvi, A. Y. Voigt, G. Zeller, S. Sunagawa, W. M. de Vos, P. Bork
Published in: Science, Issue 352/6285, 2016, Page(s) 586-589, ISSN 0036-8075
DOI: 10.1126/science.aad8852

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

Author(s): Kristoffer Forslund, Falk Hildebrand, Trine Nielsen, Gwen Falony, Emmanuelle Le Chatelier, Shinichi Sunagawa, Edi Prifti, Sara Vieira-Silva, Valborg Gudmundsdottir, Helle Krogh Pedersen, Manimozhiyan Arumugam, Karsten Kristiansen, Anita Yvonne Voigt, Henrik Vestergaard, Rajna Hercog, Paul Igor Costea, Jens Roat Kultima, Junhua Li, Torben Jørgensen, Florence Levenez, Joël Dore, H. Bjørn Nielsen,
Published in: Nature, Issue 528/7581, 2015, Page(s) 262-266, ISSN 0028-0836
DOI: 10.1038/nature15766

Human gut microbes impact host serum metabolome and insulin sensitivity

Author(s): Helle Krogh Pedersen, Valborg Gudmundsdottir, Henrik Bjørn Nielsen, Tuulia Hyotylainen, Trine Nielsen, Benjamin A. H. Jensen, Kristoffer Forslund, Falk Hildebrand, Edi Prifti, Gwen Falony, Emmanuelle Le Chatelier, Florence Levenez, Joel Doré, Ismo Mattila, Damian R. Plichta, Päivi Pöhö, Lars I. Hellgren, Manimozhiyan Arumugam, Shinichi Sunagawa, Sara Vieira-Silva, Torben Jørgensen, Jacob Bak
Published in: Nature, Issue 535/7612, 2016, Page(s) 376-381, ISSN 0028-0836
DOI: 10.1038/nature18646

Gut Microbiota Linked to Sexual Preference and HIV Infection

Author(s): Noguera-Julian M, Rocafort M, Guillén Y, Rivera J, Casadellà M, Nowak P, Hildebrand F, Zeller G, Parera M, Bellido R, Rodríguez C, Carrillo J, Mothe B, Coll J, Bravo I, Estany C, Herrero C, Saz J, Sirera G, Torrela A, Navarro J, Crespo M, Brander C, Negredo E, Blanco J, Guarner F, Calle ML, Bork P, Sönnerborg A, Clotet B, Paredes R.
Published in: EBioMedicine, Issue Volume 5, 2016, Page(s) 135-146, ISSN 2352-3964
DOI: 10.1016/j.ebiom.2016.01.032

RTK: efficient rarefaction analysis of large datasets

Author(s): Paul Saary, Kristoffer Forslund, Peer Bork, Falk Hildebrand
Published in: Bioinformatics, 2017, ISSN 1367-4803
DOI: 10.1093/bioinformatics/btx206

Microbial, functional and viral gut metagenome shifts in early stage L-DOPA naive PD patients

Author(s): Bedarf JR, Hildebrand F, Coelho LP, Sunagawa S, Bahram M, Goeser F, Bork P, Wuellner U
Published in: Genome Medicine, 2017, ISSN 1756-994X