Research Output

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Letter
2019

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

Bolyen, E., Rideout, J. R., Dillon, M. R., Bokulich, N. A., Abnet, C. C., Al-Ghalith, G. A., Alexander, H., Alm, E. J., Arumugam, M., Asnicar, F., Bai, Y., Bisanz, J. E., Bittinger, K., Brejnrod, A., Brislawn, C. J., Brown, C. T., Callahan, B. J., Caraballo-Rodríguez, A. M., Chase, J., Cope, E. K. & 92 others, Da Silva, R., Diener, C., Dorrestein, P. C., Douglas, G. M., Durall, D. M., Duvallet, C., Edwardson, C. F., Ernst, M., Estaki, M., Fouquier, J., Gauglitz, J. M., Gibbons, S. M., Gibson, D. L., Gonzalez, A., Gorlick, K., Guo, J., Hillmann, B., Holmes, S., Holste, H., Huttenhower, C., Huttley, G. A., Janssen, S., Jarmusch, A. K., Jiang, L., Kaehler, B. D., Kang, K. B., Keefe, C. R., Keim, P., Kelley, S. T., Knights, D., Koester, I., Kosciolek, T., Kreps, J., Langille, M. G. I., Lee, J., Ley, R., Liu, Y. X., Loftfield, E., Lozupone, C., Maher, M., Marotz, C., Martin, B. D., McDonald, D., McIver, L. J., Melnik, A. V., Metcalf, J. L., Morgan, S. C., Morton, J. T., Naimey, A. T., Navas-Molina, J. A., Nothias, L. F., Orchanian, S. B., Pearson, T., Peoples, S. L., Petras, D., Preuss, M. L., Pruesse, E., Rasmussen, L. B., Rivers, A., Robeson, M. S., Rosenthal, P., Segata, N., Shaffer, M., Shiffer, A., Sinha, R., Song, S. J., Spear, J. R., Swafford, A. D., Thompson, L. R., Torres, P. J., Trinh, P., Tripathi, A., Turnbaugh, P. J., Ul-Hasan, S., van der Hooft, J. J. J., Vargas, F., Vázquez-Baeza, Y., Vogtmann, E., von Hippel, M., Walters, W., Wan, Y., Wang, M., Warren, J., Weber, K. C., Williamson, C. H. D., Willis, A. D., Xu, Z. Z., Zaneveld, J. R., Zhang, Y., Zhu, Q., Knight, R. & Caporaso, J. G., Aug 1 2019, In : Nature biotechnology. 37, 8, p. 852-857 6 p.

Research output: Contribution to journalLetter

Open Access
233 Scopus citations
2018

The next generation's Frankenstein films

Nguyen, J., Newton, M. S., Strong, M., Pačesa, M., Cao, B., Winter, K. A., Dutton-Regester, K. & Kingsley, L. J., Jan 12 2018, In : Science (New York, N.Y.). 359, 6372, p. 170-171 2 p.

Research output: Contribution to journalLetter

Open Access

The role of OleA His285 in orchestration of long-chain acyl-coenzyme A substrates

Jensen, M. R., Goblirsch, B. R., Esler, M. A., Christenson, J. K., Mohamed, F. A., Wackett, L. P. & Wilmot, C. M., Mar 2018, In : FEBS Letters. 592, 6, p. 987-998 12 p.

Research output: Contribution to journalLetter

Open Access
1 Scopus citations
2017

Moving beyond de novo clustering in fungal community ecology

Cline, L. C., Song, Z., Al-Ghalith, G. A., Knights, D. & Kennedy, P. G., Nov 1 2017, In : The New phytologist. 216, 3, p. 629-634 6 p.

Research output: Contribution to journalLetter

Open Access
9 Scopus citations
2015

Reply to Dupieux et al

Schlievert, P., Salgado-Pabon, W., Herrera, A., Vu, B. G., Stach, C. S. & Merriman, J. A., Jan 1 2015, In : Journal of Infectious Diseases. 211, 5, p. 847-848 2 p.

Research output: Contribution to journalLetter

2013

Resolution of severe clostridium difficile infection following sequential fecal microbiota transplantation

Weingarden, A. R., Hamilton, M. J., Sadowsky, M. J. & Khoruts, A., Sep 1 2013, In : Journal of clinical gastroenterology. 47, 8, p. 735-737 3 p.

Research output: Contribution to journalLetter

52 Scopus citations
2011

Response to Beller et al. Definitive alkene identification needed for in vitro studies with ole (olefin biosynthesis) proteins

Frias, J. A., Richman, J. E., Erickson, J. S. & Wackett, L. P., Jul 1 2011, In : Journal of Biological Chemistry. 286, 26, p. le12-le13

Research output: Contribution to journalLetter

2010

QIIME allows analysis of high-throughput community sequencing data

Caporaso, J. G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F. D., Costello, E. K., Fierer, N., Pẽa, A. G., Goodrich, J. K., Gordon, J. I., Huttley, G. A., Kelley, S. T., Knights, D., Koenig, J. E., Ley, R. E., Lozupone, C. A., McDonald, D., Muegge, B. D., Pirrung, M., Reeder, J. & 7 others, Sevinsky, J. R., Turnbaugh, P. J., Walters, W. A., Widmann, J., Yatsunenko, T., Zaneveld, J. & Knight, R., May 1 2010, In : Nature Methods. 7, 5, p. 335-336 2 p.

Research output: Contribution to journalLetter

15435 Scopus citations
1985

Ampicillin effects on five recombinant Escherichia coli strains: Implications for selection pressure design

Dennis, K., Srienc, F. & Bailey, J. E., Oct 1985, In : Biotechnology and bioengineering. 27, 10, p. 1490-1494 5 p.

Research output: Contribution to journalLetter

25 Scopus citations