Metagenomics of the Human Intestinal Tract

    Project: EU research project

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    • 2017

      Enterotypes in the landscape of gut microbial community composition

      Costea, P. I., Hildebrand, F., Manimozhiyan, A., Bäckhed, F., Blaser, M. J., Bushman, F. D., de Vos, W. M., Ehrlich, S. D., Fraser, C. M., Hattori, M., Huttenhower, C., Jeffery, I. B., Knights, D., Lewis, J. D., Ley, R. E., Ochman, H., O'Toole, P. W., Quince, C., Relman, D. A., Shanahan, F. & 9 others, Sunagawa, S., Wang, J., Weinstock, G. M., Wu, G. D., Zeller, G., Zhao, L., Raes, J., Knight, R. & Bork, P., 2017, In: Nature Microbiology. 3, 1, p. 8-16

      Research output: Contribution to journalArticleAcademicpeer-review

      274 Citations (Scopus)
    • 2014

      An integrated catalog of reference genes in the human gut microbiome

      Li, J., Jia, H., Cai, X., Zhong, H., Feng, Q., Sunagawa, S., Arumugam, M., Kultima, J. R., Prifti, E., Nielsen, T., Juncker, A. S., Manichanh, C., Chen, B., Zhang, W., Levenez, F., Xu, X., Xiao, L., Liang, S., Zhang, D., Zhang, Z. & 19 others, Chen, W., Zhao, H., Al-Aama, J. Y., Edris, S., Yang, H., Hansen, H., Nielsen, H. B., Brunak, S., Kristiansen, K., Guarner, F., Pedersen, O., Doré, J., Ehrlich, S. D., Bork, P., Wang, J., de Vos, W. M., Tims, S., Zoetendal, E. G. & Kleerebezem, M., 2014, In: Nature Biotechnology. 32, 8, p. 834-841

      Research output: Contribution to journalArticleAcademicpeer-review

      835 Citations (Scopus)
    • Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

      Nielsen, H. B., Almeida, M., Sierakowska Juncker, A., Rasmussen, S., Li, J., Sunagawa, S., Plichta, D. R., Gautier, L., Pedersen, A. G., Le Chatelier, E., Pelletier, E., Bonde, I., Nielsen, T., Manichanh, C., Arumugam, M., Batto, J. M., Quintanilha dos Santos, M. B., Blom, N., Borruel, N., Burgdorf, K. S. & 72 others, Boumezbeur, F., Casellas, F., Doré, J., Dworzynski, P., Guarner, F., Hansen, T., Hildebrand, F., Kaas, R. S., Kennedy, S., Kristiansen, K., Kultima, J. R., Leonard, P., Levenez, F., Lund, O., Moumen, B., Le Paslier, D., Pons, N., Pedersen, O., Prifti, E., Qin, J., Raes, J., Sørensen, S., Tap, J., Tims, S., Ussery, D. W., Yamada, T., Jamet, A., Mérieux, A., Cultrone, A., Torrejon, A., Quinquis, B., Brechot, C., Delorme, C., M'Rini, C., de Vos, W. M., Maguin, E., Varela, E., Guedon, E., Gwen, F., Haimet, F., Artiguenave, F., Vandemeulebrouck, G., Denariaz, G., Khaci, G., Blottière, H., Knol, J., Weissenbach, J., van Hylckama Vlieg, J. E., Torben, J., Parkhil, J., Turner, K., van de Guchte, M., Antolin, M., Rescigno, M., Kleerebezem, M., Derrien, M., Galleron, N., Sanchez, N., Grarup, N., Veiga, P., Oozeer, R., Dervyn, R., Layec, S., Bruls, T., Winogradski, Y., Zoetendal, E. G., Renault, D., Sicheritz-Ponten, Bork, P., Wang, J., Brunak, S. & Ehrlich, S. D., 2014, In: Nature Biotechnology. 32, p. 822-828

      Research output: Contribution to journalArticleAcademicpeer-review

      462 Citations (Scopus)
    • 2013

      Metagenomic species profiling using universal phylogenetic marker genes

      Sunagawa, S., Mende, D. R., Zeller, G., Izquierdo-Carrasco, F., Berger, S. A., Kultima, J. R., Coelho, L. P., Arumugam, M., Tap, J., Nielsen, H. B., Rasmussen, S., Brunak, S., Pedersen, O., Guarner, F., de Vos, W. M., Wang, J., Li, J., Doré, J., Ehrlich, S. D., Stamatakis, A. & 1 others, Bork, P., 2013, In: Nature Methods : techniques for life scientists and chemists. 10, 12, p. 1196-1199

      Research output: Contribution to journalArticleAcademicpeer-review

      256 Citations (Scopus)
    • Microbiota conservation and BMI signatures in adult monozygotic twins

      Tims, S., Derom, C., Jonkers, D. M. A. E., Vlietinck, R., Saris, W. H., Kleerebezem, M., de Vos, W. M. & Zoetendal, E. G., 2013, In: ISME Journal. 7, p. 707-717

      Research output: Contribution to journalArticleAcademicpeer-review

      170 Citations (Scopus)
    • Richness of human gut microbiome correlates with metabolic markers

      Le Chatelier, E., Nielsen, T., Qin, J., Prifti, E., Hildebrand, F., Falony, G., Almeida, M., Arumugam, M., Batto, J. M., Kennedy, S., Leonard, P., Li, J., Burgdorf, K., Grarup, N., Jorgensen, T., Branslund, I., Nielsen, H. B., Juncker, A. S., Bertalan, M., Levenez, F. & 62 others, Pons, N., Rasmussen, S., Sunagawa, S., Tap, J., Tims, S., Zoetendal, E. G., Brunak, S., Clement, K., Dore, J., Kleerebezem, M., Kristiansen, K., Renault, P., Sicheritz-Ponten, T., de Vos, W. M., Zucker, J. D., Raes, J., Hansen, T., Bork, P., Wang, J., Ehrlich, S. D., Pederson, O., Guedon, E., Delorme, C., Layec, S., Khaci, G., van de Guchte, M., Vandemeulebrouck, G., Jamet, A., Dervyn, R., Sanchez, N., Maguin, E., Haimet, F., Winogradski, Y., Cultrone, A., Leclerc, M., Juste, C., Blottière, H., Pelletier, E., LePaslier, D., Artiguenave, F., Bruls, T., Weissenbach, J., Turner, K., Parkhill, J., Antolin, M., Manichanh, C., Casellas, F., Boruel, N., Varela, E., Torrejon, A., Guarner, F., Denariaz, G., Derrien, M., van Hylckama Vlieg, J. E. T., Veiga, P., Oozeer, R., Knol, J., Rescigno, M., Brechot, C., M'Rini, C., Mérieux, A. & Yamada, T., 2013, In: Nature. 500, 7464, p. 541-546

      Research output: Contribution to journalArticleAcademicpeer-review

      2081 Citations (Scopus)
    • 2011

      Enterotypes of the human gut microbiome

      Arumugam, M., Hansen, T., Kleerebezem, M., Tims, S., Zoetendal, E. G. & de Vos, W. M., 2011, In: Nature. 473, 7346, p. 174-180

      Research output: Contribution to journalArticleAcademicpeer-review

      3623 Citations (Scopus)
    • 2010

      A human gut microbial gene catalogue established by metagenomic sequencing

      Qin, J., Li, R., Raes, J., Arumugam, M., Tims, S., de Vos, W. M., Zoetendal, E. G. & Kleerebezem, M., 2010, In: Nature. 464, p. 59-65

      Research output: Contribution to journalArticleAcademicpeer-review

      6002 Citations (Scopus)