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Results: 14

1.

Phage-bacteria network analysis and its implication for the understanding of coral disease.

Soffer N, Zaneveld J, Vega Thurber R.

Environ Microbiol. 2014 Jul 8. doi: 10.1111/1462-2920.12553. [Epub ahead of print]

PMID:
25039472
[PubMed - as supplied by publisher]
2.

Genome-wide association scan in north Indians reveals three novel HLA-independent risk loci for ulcerative colitis.

Juyal G, Negi S, Sood A, Gupta A, Prasad P, Senapati S, Zaneveld J, Singh S, Midha V, van Sommeren S, Weersma RK, Ott J, Jain S, Juyal RC, Thelma BK.

Gut. 2014 May 16. pii: gutjnl-2013-306625. doi: 10.1136/gutjnl-2013-306625. [Epub ahead of print]

PMID:
24837172
[PubMed - as supplied by publisher]
3.

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences.

Langille MG, Zaneveld J, Caporaso JG, McDonald D, Knights D, Reyes JA, Clemente JC, Burkepile DE, Vega Thurber RL, Knight R, Beiko RG, Huttenhower C.

Nat Biotechnol. 2013 Sep;31(9):814-21. doi: 10.1038/nbt.2676. Epub 2013 Aug 25.

PMID:
23975157
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

CGAP-align: a high performance DNA short read alignment tool.

Chen Y, Hong J, Cui W, Zaneveld J, Wang W, Gibbs R, Xiao Y, Chen R.

PLoS One. 2013 Apr 11;8(4):e61033. doi: 10.1371/journal.pone.0061033. Print 2013.

PMID:
23593381
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Dawn of ocular gene therapy: implications for molecular diagnosis in retinal disease.

Zaneveld J, Wang F, Wang X, Chen R.

Sci China Life Sci. 2013 Feb;56(2):125-33. doi: 10.1007/s11427-013-4443-y. Epub 2013 Feb 8. Review.

PMID:
23393028
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts.

Lozupone C, Faust K, Raes J, Faith JJ, Frank DN, Zaneveld J, Gordon JI, Knight R.

Genome Res. 2012 Oct;22(10):1974-84. doi: 10.1101/gr.138198.112. Epub 2012 Jun 4.

PMID:
22665442
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients.

Fierer N, Lauber CL, Ramirez KS, Zaneveld J, Bradford MA, Knight R.

ISME J. 2012 May;6(5):1007-17. doi: 10.1038/ismej.2011.159. Epub 2011 Dec 1.

PMID:
22134642
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Human-associated microbial signatures: examining their predictive value.

Knights D, Parfrey LW, Zaneveld J, Lozupone C, Knight R.

Cell Host Microbe. 2011 Oct 20;10(4):292-6. doi: 10.1016/j.chom.2011.09.003.

PMID:
22018228
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Bayesian community-wide culture-independent microbial source tracking.

Knights D, Kuczynski J, Charlson ES, Zaneveld J, Mozer MC, Collman RG, Bushman FD, Knight R, Kelley ST.

Nat Methods. 2011 Jul 17;8(9):761-3. doi: 10.1038/nmeth.1650.

PMID:
21765408
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Direct sequencing of the human microbiome readily reveals community differences.

Kuczynski J, Costello EK, Nemergut DR, Zaneveld J, Lauber CL, Knights D, Koren O, Fierer N, Kelley ST, Ley RE, Gordon JI, Knight R.

Genome Biol. 2010;11(5):210. doi: 10.1186/gb-2010-11-5-210. Epub 2010 May 5. Review.

PMID:
20441597
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

QIIME allows analysis of high-throughput community sequencing data.

Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky JR, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R.

Nat Methods. 2010 May;7(5):335-6. doi: 10.1038/nmeth.f.303. Epub 2010 Apr 11. No abstract available.

PMID:
20383131
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

CodonExplorer: an interactive online database for the analysis of codon usage and sequence composition.

Zaneveld J, Hamady M, Sueoka N, Knight R.

Methods Mol Biol. 2009;537:207-32. doi: 10.1007/978-1-59745-251-9_10.

PMID:
19378146
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

CodonExplorer: an online tool for analyzing codon usage and sequence composition, scaling from genes to genomes.

Hamady M, Wilson SA, Zaneveld J, Sueoka N, Knight R.

Bioinformatics. 2009 May 15;25(10):1331-2. doi: 10.1093/bioinformatics/btp141. Epub 2009 Mar 11.

PMID:
19279067
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Host-bacterial coevolution and the search for new drug targets.

Zaneveld J, Turnbaugh PJ, Lozupone C, Ley RE, Hamady M, Gordon JI, Knight R.

Curr Opin Chem Biol. 2008 Feb;12(1):109-14. doi: 10.1016/j.cbpa.2008.01.015. Epub 2008 Mar 5. Review.

PMID:
18280814
[PubMed - indexed for MEDLINE]
Free PMC Article

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