Turnbaugh:Publications

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Research

1. Reshef-Science Reshef, D.N., Reshef, Y.A., Finucane, H.K., Grossman, S.R., McVean, G., Turnbaugh, P.J., Landers, E.S., Mitzenmacher, M., and P.C. Sabeti. Detecting novel associations in large data sets. Science 334, 1518-1524 (2011). PDF
2. Jumpertz Jumpertz, R., Le, D.S., Turnbaugh, P.J., Trinidad, C., Bogardus, C., Gordon, J.I., and J. Krakoff. Energy-balance studies reveal associations between gut microbes, caloric load, and nutrient absorption in humans. AJCN, Epub 2011 May 4. PDF
3. Patil Patil, K.R., Haider, P., Pope, P.B., Turnbaugh, P.J., Morrison, M., Scheffer, T., and A.C. McHardy. Taxonomic metagenome sequence assignment with structured output models. Nat. Methods 8, 191-192 (2011). PDF
4. Quince Quince, C., Lanzen, A., Davenport, R.J., and P.J. Turnbaugh. Removing noise from pyrosequenced amplicons. BMC Bioinformatics 12, Epub ahead of print (2011). PDF
5. Maurice Maurice, C.F. and P.J. Turnbaugh. The human microbiome: exploring and manipulating our microbial selves. In Metagenomics: Current Innovations and Future Trends. Caister Academic Press (2011). Get a copy here
6. Turnbaugh Turnbaugh, P.J., Henrissat, B., and J.I. Gordon. Viewing the human microbiome through three-dimensional glasses: integrating structural and functional studies to better define the properties of myriad carbohydrate-active enzymes. Acta Cryst. F. 66, 1261-1264 (2010). PDF
7. Gootenberg Gootenberg, D.B. and P.J. Turnbaugh. Humanized animal models of the microbiome. J. Animal Sci. 89, 1531-1537 (2011). Epub 2010 Sep 10. PDF
8. Peterson Peterson, D.A. and P.J. Turnbaugh. A microbe-dependent viral key to Crohn’s box. Sci. Transl. Med. 2, 43ps39 (2010). PDF
9. Caporaso Caporaso, J.G., Lauber, C.L., Walters, W.A., Berg-Lyons, D., Lozupone, C.A., Turnbaugh, P.J., Fierer, N., and R. Knight. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. PNAS 108, 4516-4522 (2011). Epub 2010 Jun 3. PDF
10. Caporaso Caporaso, J.G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F.D., Costello, E.K., Fierer, N., Pena, 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., Sevinsky, J.R., Turnbaugh, P.J., Walters, W.A., Widmann, J., Yatsunenko, T., Zanefeld, J., and R. Knight. QIIME allows analysis of high-throughput community sequencing data. Nat. Methods, Epub ahead of print (2010). PDF
11. Turnbaugh Turnbaugh, P.J., Ridaura, V.K., Faith, J.J., Rey, F.E., Knight, R., and J.I. Gordon. The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice. Sci. Transl. Med. 1, 6ra14 (2009). PDF
12. Turnbaugh Turnbaugh, P.J., Quince, C., Faith, J.J., McHardy, A.C., Yatsunenko, T., Niazi, F., Affourtit, J., Egholm, M., Henrissat, B., Knight, R., and J.I. Gordon. Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins. PNAS, Epub ahead of print (2010). PDF
13. Turnbaugh Turnbaugh, P.J. and J.I. Gordon. The core gut microbiome, energy balance, and obesity. J. Phys. 587, 4153-4158 (2009). Epub 2009 June 2. PDF
14. Mahowald Mahowald, M.A., Rey, F.E., Seedorf, H., Turnbaugh, P.J., Fulton, R.S., Wollam, A., Shah, N., Wang, C., Magrini, V., Wilson, R.K., Cantarel, B.L., Coutinho, P.M., Henrissat, B., Crock, L.W., Russell, A., Verberkmoes, N.C., Hettich, R., and J.I. Gordon. Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla. PNAS 106, 5859-5864 (2009). Epub 2009 Mar 24. PDF
15. Turnbaugh Turnbaugh, P.J., Hamady, M., Yatsunenko, T., Cantarel, B.L., Duncan, A., Ley, R.E., Sogin, M.L., Jones, W.J., Roe, B.A., Affourtit, J.P., Egholm, M., Henrissat, B., Heath, A.C., Knight, R., and J.I. Gordon. A core gut microbiome in obese and lean twins. Nature 457, 480-484 (2009). Epub 2008 Nov 30. PDF
16. Turnbaugh Turnbaugh, P.J. and J.I. Gordon. An invitation to the marriage of metagenomics and metabolomics. Cell 134, 708-713 (2008). PDF
17. Ley Ley, R.E.,Hamady, M., Lozupone, C., Turnbaugh, P.J., Ramey, R.R., Bircher, J.S., Schlegel, M.L., Tucker, T.A., Schrenzel, M.D., Knight, R., and J.I. Gordon. Evolution of mammals and their gut microbes. Science 320, 1647-1651 (2008). PDF
18. Turnbaugh Turnbaugh, P.J., Backhed, F., Fulton, L., and J.I. Gordon. Diet-induced obesity in linked to marked but reversible alterations in the mouse distal gut microbiome. Cell Host Microbe 3, 213-223 (2008). PDF
19. Zanefeld Zanefeld, J., Turnbaugh, P.J., Lozupone, C., Ley, R.E., Hamady, M., Gordon, J.I., and R. Knight. Host-bacterial coevolution and the search for new drug targets. Curr. Op. Chem. Bio. 12, 1-6 (2008). PDF
20. Turnbaugh Turnbaugh, P.J., Ley, R.E., Hamady, M., Fraser-Liggett, C.M., Knight, R. & J.I. Gordon. The human microbiome project. Nature 449, 804-810 (2007). PDF
21. Turnbaugh Turnbaugh, P.J., Ley, R.E., Mahowald, M., Magrini, V., Mardis, E.R., and J.I. Gordon. An obesity-associated microbiome with increased capacity for energy harvest. Nature 444, 1027-1031 (2006). PDF
22. Ley Ley, R.E., Turnbaugh, P.J., Klein, S., and J.I. Gordon. Human gut microbes associated with obesity. Nature 444, 1022-1023 (2006). PDF
23. Gill Gill, S.R., Pop, M., DeBoy, R.T., Eckburg, P., Turnbaugh, P.J., Samuel, B., Gordon, J.I., Relman, D., Fraser-Ligett, C.M., and K.E. Nelson. Metagenomic analysis of the human distal gut microbiome. Science 312, 1355-1359 (2006). PDF
24. Gertz Gertz, J., Riles, L., Turnbaugh, P., Ho, S., and B.A. Cohen. Discovery, Validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics. Genome Research 15, 1145-1152 (2005). PDF
25. Ley Ley, R. E., Bäckhed, F., Turnbaugh, P., Lozupone, C., Knight, R. and J. I. Gordon. Obesity alters gut microbial ecology. PNAS 102, 11070-11075 (2005). PDF

Reviews

1. Babayan Babayan, S.A., Allen, J.E., Bradley, J.E., Geuking, M.B., Graham, A.L., Grencis, R.K., Kaufman, J., McCoy, K.D., Paterson, S., Smith, K.G.C., Turnbaugh, P.J., Viney, M.E., Maizels, R.M. and A.B. Petersen. Wild immunology: converging on the ‘real world’. Annals NY Acad. Sci., 1236, 17-29 (2011). PDF
2. Turnbaugh Turnbaugh, P.J. and A. Stintzi. Human health and disease in a microbial world. Front. Microbio. 2:190. doi: 10.3389/fmicb.2011.00190 (2011). PDF
3. Swanson Swanson, K.S., Suchodolski, J.S., and P.J. Turnbaugh. Companion animals symposium: microbes and health. J. Animal Sci., 5, 1496-1497 (2011). PDF
4. Gonzalez Gonzalez, A., Stombaugh, J., Lozupone, C., Turnbaugh, P.J., Gordon, J.I., and R. Knight. The mind-body microbial continuum. Diag. Clin. Neuro. 13, 55-62 (2011). PDF