2023

Enterotypes of the human gut mycobiome.
Lai, S., Yan, Y., Pu, Y., Lin, S., Qiu, J.G., Jiang, B.H., Keller, M.I., Wang, M., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Chen, W.H., Zheng, Y. and Zhao, X.M.
Microbiome 11 (1): 179. 11 August 2023

2022

Alterations of oral microbiota and impact on the gut microbiome in type 1 diabetes mellitus revealed by integrated multi-omic analyses.
Kunath, B.J., Hickl, O., Queirós, P., Martin-Gallausiaux, C., Lebrun, L.A., Halder, R., Laczny, C.C., Schmidt, T.S.B., Hayward, M.R., Becher, D., Heintz-Buschart, A., de Beaufort, C., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, May, P. and Wilmes, P.
Microbiome 10 (1): 243. 28 December 2022

Guts within guts: the microbiome of the intestinal helminth parasite Ascaris suum is derived but distinct from its host.
Midha, A., Jarquín-Díaz, V.H. ORCID: https://orcid.org/0000-0003-3758-1091, Ebner, F., Löber, U. ORCID: https://orcid.org/0000-0001-7468-9531, Hayani, R., Kundik, A., Cardilli, A., Heitlinger, E., Forslund, S.K. ORCID: https://orcid.org/0000-0003-4285-6993 and Hartmann, S.
Microbiome 10 (1): 229. 16 December 2022

Cultivation-independent genomes greatly expand taxonomic-profiling capabilities of mOTUs across various environments.
Ruscheweyh, H.J., Milanese, A., Paoli, L., Karcher, N., Clayssen, Q., Keller, M.I., Wirbel, J., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X, Mende, D.R., Zeller, G. and Sunagawa, S.
Microbiome 10 (1): 212. 5 December 2022

2019

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language.
Coelho, L.P., Alves, R., Monteiro, P., Huerta-Cepas, J., Freitas, A.T. and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Microbiome 7 (1): 84. 3 June 2019

2018

Similarity of the dog and human gut microbiomes in gene content and response to diet.
Coelho, L.P. ORCID: https://orcid.org/0000-0002-9280-7885, Kultima, J.R., Costea, P.I., Fournier, C., Pan, Y., Czarnecki-Maulden, G., Hayward, M.R., Forslund, S.K. ORCID: https://orcid.org/0000-0003-4285-6993, Schmidt, T.S.B., Descombes, P., Jackson, J.R., Li, Q. and Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X
Microbiome 6 (1): 72. 19 April 2018

2014

LotuS: an efficient and user-friendly OTU processing pipeline.
Hildebrand, F., Tito, R.Y., Voigt, A.Y., Bork, P. ORCID: https://orcid.org/0000-0002-2627-833X and Raes, J.
Microbiome 2 (1): 30. 30 September 2014