Molinaro A, Bel Lassen P, Henricsson M, Wu H, Adriouch S, Belda E, Chakaroun R, Nielsen T, Bergh PO, Rouault C, André S, Marquet F, Andreelli F, Salem JE, Assmann K, Bastard JP, Forslund S, Le Chatelier E, Falony G, Pons N, Prifti E, Quinquis B, Roume H, Vieira-Silva S, Hansen TH, Pedersen HK, Lewinter C, Sønderskov NB, MetaCardis Consortium, Køber L, Vestergaard H, Hansen T, Zucker JD, Galan P, Dumas ME, Raes J, Oppert JM, Letunic I, Nielsen J, Bork P, Ehrlich SD, Stumvoll M, Pedersen O, Aron-Wisneswky J, Clément K, Bäckhed F. (2020)

Imidazole propionate is increased in diabetes and associated with dietary patterns and altered microbial ecology.

Nat Commun 11(1) doi: 10.1038/s41467-020-19589-w
Europe PMC | doi

Coelho LP, Alves R, Monteiro P, Huerta-Cepas J, Freitas AT, Bork P. (2019)

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language.

Microbiome 7(1) doi: 10.1186/s40168-019-0684-8
Europe PMC | doi

Milanese A, Mende DR, Paoli L, Salazar G, Ruscheweyh HJ, Cuenca M, Hingamp P, Alves R, Costea PI, Coelho LP, Schmidt TSB, Almeida A, Mitchell AL, Finn RD, Huerta-Cepas J, Bork P, Zeller G, Sunagawa S. (2019)

Microbial abundance, activity and population genomic profiling with mOTUs2.

Nat Commun 10(1) doi: 10.1038/s41467-019-08844-4
Europe PMC | doi

Schmidt TSB, Hayward MR, Coelho LP, Li SS, Costea PI, Voigt AY, Wirbel J, Maistrenko OM, Alves RJ, Bergsten E, de Beaufort C, Sobhani I, Heintz-Buschart A, Sunagawa S, Zeller G, Wilmes P, Bork P. (2019)

Extensive transmission of microbes along the gastrointestinal tract.

Elife 8 doi: 10.7554/eLife.42693
Europe PMC | doi

Hildebrand F, Moitinho-Silva L, Blasche S, Jahn MTT, Gossmann TI, Huerta Cepas J, Hercog R, Luetge M, Bahram M, Pryszlak A, Alves RJ, Waszak SM, Zhu A, Ye L, Costea PI, Belzer C, Aalvink S, Sunagawa S, Forslund SK, Merten C, Hentschel U, Benes V, Patil KR, Bork P. (2019)

Antibiotics-induced monodominance of a novel gut bacterial order.

Gut 68(10):1781-1790. doi: 10.1136/gutjnl-2018-317715
Europe PMC | doi