Bio-informatical analysis of the intestinal microbiota

Thanks to his on-going collaboration with Dan Knights Lab at the University of Minnesota Department of Computer Science and Engineering and the American Gut Consortium, Emmanuel Montassier has co-authored several high-quality papers that highlight his expertise in bio-informatical analysis of the intestinal microbiota, including data produced by 16s RNA sequencing, shot-gun sequencing and coming soon metabolomics. Emmanuel supervises Master and PhD students in this rapidly evolving area in order to constitute a microbiota bio-informatical analysis team.

Recent publications with the Dan Knights Lab

Montassier, E., G.A. Al-Ghalith, B. Hillmann, K. Viskocil, A.J. Kabage, C.E. McKinlay, M.J. Sadowsky, A. Khoruts, and D. Knights. 2018. CLOUD: a non-parametric detection test for
microbiome outliers. Microbiome 6:137.

McDonald, D., E. Hyde, J.W. Debelius, J.T. Morton, A. Gonzalez, G. Ackermann, A.A. Aksenov, B. Behsaz, C. Brennan, Y. Chen, L. DeRight Goldasich, P.C. Dorrestein, R.R. Dunn,A.K. Fahimipour, J. Gaffney, J.A. Gilbert, G. Gogul, J.L. Green, P. Hugenholtz, G. Humphrey, C. Huttenhower, M.A. Jackson, S. Janssen, D.V. Jeste, L. Jiang, S.T. Kelley, D. Knights, T.Kosciolek, J. Ladau, J. Leach, C. Marotz, D. Meleshko, A.V. Melnik, J.L. Metcalf, H. Mohimani, E. Montassier, J. Navas-Molina, T.T. Nguyen, S. Peddada, P. Pevzner, K.S. Pollard,G. Rahnavard, A. Robbins-Pianka, N. Sangwan, J. Shorenstein, L. Smarr, S.J. Song, T. Spector, A.D. Swafford, V.G. Thackray, L.R. Thompson, A. Tripathi, Y. Vazquez-Baeza, A. Vrbanac, P. Wischmeyer, E. Wolfe, Q. Zhu, and R. Knight. 2018. American Gut: an Open Platform for Citizen Science Microbiome Research. MSystems 3.

Al-Ghalith, Gabriel A., Emmanuel Montassier, Henry N. Ward, and Dan Knights (2016) NINJA-OPS: Fast Accurate Marker Gene Alignment Using Concatenated Ribosomes. PLoS Computational Biology 12(1): e1004658.