Bushman FD - Search Results

1

A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples.

Dollive S, Peterfreund GL, Sherrill-Mix S, Bittinger K, Sinha R, Hoffmann C, Nabel CS, Hill DA, Artis D, Bachman MA, Custers-Allen R, Grunberg S, Wu GD, Lewis JD, Bushman FD. Dollive S, et al. Among authors: bushman fd. Genome Biol. 2012 Jul 3;13(7):R60. doi: 10.1186/gb-2012-13-7-r60. Genome Biol. 2012. PMID: 22759449 Free PMC article.

2

Community-wide response of the gut microbiota to enteropathogenic Citrobacter rodentium infection revealed by deep sequencing.

Hoffmann C, Hill DA, Minkah N, Kirn T, Troy A, Artis D, Bushman F. Hoffmann C, et al. Infect Immun. 2009 Oct;77(10):4668-78. doi: 10.1128/IAI.00493-09. Epub 2009 Jul 27. Infect Immun. 2009. PMID: 19635824 Free PMC article.

3

High-fat diet determines the composition of the murine gut microbiome independently of obesity.

Hildebrandt MA, Hoffmann C, Sherrill-Mix SA, Keilbaugh SA, Hamady M, Chen YY, Knight R, Ahima RS, Bushman F, Wu GD. Hildebrandt MA, et al. Gastroenterology. 2009 Nov;137(5):1716-24.e1-2. doi: 10.1053/j.gastro.2009.08.042. Epub 2009 Aug 23. Gastroenterology. 2009. PMID: 19706296 Free PMC article.

4

PyNAST: a flexible tool for aligning sequences to a template alignment.

Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen GL, Knight R. Caporaso JG, et al. Among authors: bushman fd. Bioinformatics. 2010 Jan 15;26(2):266-7. doi: 10.1093/bioinformatics/btp636. Epub 2009 Nov 13. Bioinformatics. 2010. PMID: 19914921 Free PMC article.

5

Metagenomic analyses reveal antibiotic-induced temporal and spatial changes in intestinal microbiota with associated alterations in immune cell homeostasis.

Hill DA, Hoffmann C, Abt MC, Du Y, Kobuley D, Kirn TJ, Bushman FD, Artis D. Hill DA, et al. Among authors: bushman fd. Mucosal Immunol. 2010 Mar;3(2):148-58. doi: 10.1038/mi.2009.132. Epub 2009 Nov 25. Mucosal Immunol. 2010. PMID: 19940845 Free PMC article.

6

Hepatitis C virus transmission bottlenecks analyzed by deep sequencing.

Wang GP, Sherrill-Mix SA, Chang KM, Quince C, Bushman FD. Wang GP, et al. Among authors: bushman fd. J Virol. 2010 Jun;84(12):6218-28. doi: 10.1128/JVI.02271-09. Epub 2010 Apr 7. J Virol. 2010. PMID: 20375170 Free PMC article.

7

Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags.

Wu GD, Lewis JD, Hoffmann C, Chen YY, Knight R, Bittinger K, Hwang J, Chen J, Berkowsky R, Nessel L, Li H, Bushman FD. Wu GD, et al. Among authors: bushman fd. BMC Microbiol. 2010 Jul 30;10:206. doi: 10.1186/1471-2180-10-206. BMC Microbiol. 2010. PMID: 20673359 Free PMC article.

8

Disordered microbial communities in the upper respiratory tract of cigarette smokers.

Charlson ES, Chen J, Custers-Allen R, Bittinger K, Li H, Sinha R, Hwang J, Bushman FD, Collman RG. Charlson ES, et al. Among authors: bushman fd. PLoS One. 2010 Dec 20;5(12):e15216. doi: 10.1371/journal.pone.0015216. PLoS One. 2010. PMID: 21188149 Free PMC article.

9

Switching between raltegravir resistance pathways analyzed by deep sequencing.

Mukherjee R, Jensen ST, Male F, Bittinger K, Hodinka RL, Miller MD, Bushman FD. Mukherjee R, et al. Among authors: bushman fd. AIDS. 2011 Oct 23;25(16):1951-9. doi: 10.1097/QAD.0b013e32834b34de. AIDS. 2011. PMID: 21832937 Free PMC article.

10

The human gut virome: inter-individual variation and dynamic response to diet.

Minot S, Sinha R, Chen J, Li H, Keilbaugh SA, Wu GD, Lewis JD, Bushman FD. Minot S, et al. Among authors: bushman fd. Genome Res. 2011 Oct;21(10):1616-25. doi: 10.1101/gr.122705.111. Epub 2011 Aug 31. Genome Res. 2011. PMID: 21880779 Free PMC article.

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