Mani Arumugam

Mani Arumugam

ORCID: 0000-0002-0886-9101

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  1. Published

    MIntO: A Modular and Scalable Pipeline For Microbiome Metagenomic and Metatranscriptomic Data Integration

    Saenz, C., Nigro, E., Gunalan, V. & Arumugam, Mani, 2022, In: Frontiers in Bioinformatics. 2, 15 p., 846922.

    Research output: Contribution to journal › Journal article › Research › peer-review

  2. MOCAT: a metagenomics assembly and gene prediction toolkit

    Kultima, J. R., Sunagawa, S., Li, J., Chen, W., Chen, H., Mende, D. R., Arumugam, Mani, Pan, Q., Liu, B., Qin, J., Wang, J. & Bork, P., 2012, In: PLOS ONE. 7, 10, p. e47656

    Research output: Contribution to journal › Journal article › Research › peer-review

  3. Published

    Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer

    Wirbel, J., Pyl, P. T., Kartal, E., Zych, K., Kashani, A., Milanese, A., Fleck, J. S., Voigt, A. Y., Palleja, A., Ponnudurai, R., Sunagawa, S., Coelho, L. P., Schrotz-King, P., Vogtmann, E., Habermann, N., Niméus, E., Thomas, A. M., Manghi, P., Gandini, S., Serrano, D. & 15 others, Mizutani, S., Shiroma, H., Shiba, S., Shibata, T., Yachida, S., Yamada, T., Waldron, L., Naccarati, A., Segata, N., Sinha, R., Ulrich, C. M., Brenner, H., Arumugam, Mani, Bork, P. & Zeller, G., 2019, In: Nature Medicine. 25, 4, p. 679-689 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  4. Published

    Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

    Thomas, A. M., Manghi, P., Asnicar, F., Pasolli, E., Armanini, F., Zolfo, M., Beghini, F., Manara, S., Karcher, N., Pozzi, C., Gandini, S., Serrano, D., Tarallo, S., Francavilla, A., Gallo, G., Trompetto, M., Ferrero, G., Mizutani, S., Shiroma, H., Shiba, S. & 19 others, Shibata, T., Yachida, S., Yamada, T., Wirbel, J., Schrotz-King, P., Ulrich, C. M., Brenner, H., Arumugam, Mani, Bork, P., Zeller, G., Cordero, F., Dias-Neto, E., Setubal, J. C., Tett, A., Pardini, B., Rescigno, M., Waldron, L., Naccarati, A. & Segata, N., 2019, In: Nature Medicine. 25, 4, p. 667-678 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  5. Published

    Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer

    Yu, J., Feng, Q., Wong, S. H., Zhang, D., Liang, Q. Y., Qin, Y., Tang, L., Zhao, H., Stenvang, J., Li, Y., Wang, X., Xu, X., Chen, N., Wu, W. K. K., Al-Aama, J., Nielsen, H. J., Kiilerich, P., Jensen, B. A. H., Yau, T. O., Lan, Z. & 19 others, Jia, H., Li, J., Xiao, L., Lam, T. Y. T., Ng, S. C., Cheng, A. S., Wong, V. W., Chan, F. K. L., Xu, X., Yang, H., Madsen, L., Datz, C., Tilg, H., Wang, J., Brünner, N., Kristiansen, Karsten, Arumugam, Mani, Sung, J. J. & Wang, J., 2017, In: Gut. 66, p. 70-78 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  6. Published

    Metagenomic evidence for co-occurrence of antibiotic, biocide and metal resistance genes in pigs

    Li, Xuan Ji, Rensing, C., Vestergaard, G., Arumugam, Mani, Nesme, Joseph, Gupta, S., Brejnrod, A. D. & Sørensen, Søren Johannes, 2022, In: Environment International. 158, 10 p., 106899.

    Research output: Contribution to journal › Journal article › Research › peer-review

  7. Published

    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. B., 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. 10, 12, p. 1196-1199 4 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  8. Published

    Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

    Yilmaz, P., Kottmann, R., Field, D., Knight, R., Cole, J. R., Amaral-Zettler, L., Gilbert, J. A., Karsch-Mizrachi, I., Johnston, A., Cochrane, G., Vaughan, R., Hunter, C., Park, J., Morrison, N., Rocca-Serra, P., Sterk, P., Arumugam, M., Bailey, M., Baumgartner, L., Birren, B. W. & 78 others, Blaser, M. J., Bonazzi, V., Booth, T., Bork, P., Bushman, F. D., Buttigieg, P. L., Chain, P. S. G., Charlson, E., Costello, E. K., Huot-Creasy, H., Dawyndt, P., DeSantis, T., Fierer, N., Fuhrman, J. A., Gallery, R. E., Gevers, D., Gibbs, R. A., San Gil, I., Gonzalez, A., Gordon, J. I., Guralnick, R., Hankeln, W., Highlander, S., Hugenholtz, P., Jansson, J., Kau, A. L., Kelley, S. T., Kennedy, J., Knights, D., Koren, O., Kuczynski, J., Kyrpides, N., Larsen, R., Lauber, C. L., Legg, T., Ley, R. E., Lozupone, C. A., Ludwig, W., Lyons, D., Maguire, E., Methé, B. A., Meyer, F., Muegge, B., Nakielny, S., Nelson, K. E., Nemergut, D., Neufeld, J. D., Newbold, L. K., Oliver, A. E., Pace, N. R., Palanisamy, G., Peplies, J., Petrosino, J., Proctor, L., Pruesse, E., Quast, C., Raes, J., Ratnasingham, S., Ravel, J., Relman, D. A., Assunta-Sansone, S., Schloss, P. D., Schriml, L., Sinha, R., Smith, M. I., Sodergren, E., Spo, A., Stombaugh, J., Tiedje, J. M., Ward, D. V., Weinstock, G. M., Wendel, D., White, O., Whiteley, A., Wilke, A., Wortman, J. R., Yatsunenko, T. & Glöckner, F. O., 2011, In: Nature Biotechnology. 29, 5, p. 415-20 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  9. Published

    Molecular properties of adult mouse gastric and intestinal epithelial progenitors in their niches

    Giannakis, M., Stappenbeck, T. S., Mills, J. C., Leip, D. G., Lovett, M., Clifton, S. W., Ippolito, J. E., Glasscock, J. I., Arumugam, Mani, Brent, M. R. & Gordon, J. I., 2006, In: Journal of Biological Chemistry. 281, 16, p. 11292-300 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. Published

    Oral supplementation of nicotinamide riboside alters intestinal microbial composition in rats and mice, but not humans

    Peluso, A. A., Lundgaard, A. T., Babaei, P., Mousovich-Neto, F., Rocha, A. L., Damgaard, M. V., Bak, E. G., Gnanasekaran, T., Dollerup, O. L., Trammell, S. A. J., Nielsen, T. S., Kern, T., Abild, C. B., Sulek, K., Ma, T., Gerhart-Hines, Z., Gillum, M. P., Arumugam, M., Ørskov, C., McCloskey, D. & 4 others, Jessen, N., Herrgård, M. J., Mori, M. A. S. & Treebak, Jonas Thue, 2023, In: npj Aging. 9, 21 p., 7.

    Research output: Contribution to journal › Journal article › Research › peer-review

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ID: 41056735