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Items: 17


Comprehensive analysis of patients with Stargardt macular dystrophy reveals new genotype-phenotype correlations and unexpected diagnostic revisions.

Zaneveld J, Siddiqui S, Li H, Wang X, Wang H, Wang K, Li H, Ren H, Lopez I, Dorfman A, Khan A, Wang F, Salvo J, Gelowani V, Li Y, Sui R, Koenekoop R, Chen R.

Genet Med. 2015 Apr;17(4):262-70. doi: 10.1038/gim.2014.174. Epub 2014 Dec 4.


Natural volcanic CO2 seeps reveal future trajectories for host-microbial associations in corals and sponges.

Morrow KM, Bourne DG, Humphrey C, Botté ES, Laffy P, Zaneveld J, Uthicke S, Fabricius KE, Webster NS.

ISME J. 2015 Mar 17;9(4):894-908. doi: 10.1038/ismej.2014.188.


TET2 mutations predict response to hypomethylating agents in myelodysplastic syndrome patients.

Bejar R, Lord A, Stevenson K, Bar-Natan M, Pérez-Ladaga A, Zaneveld J, Wang H, Caughey B, Stojanov P, Getz G, Garcia-Manero G, Kantarjian H, Chen R, Stone RM, Neuberg D, Steensma DP, Ebert BL.

Blood. 2014 Oct 23;124(17):2705-12. doi: 10.1182/blood-2014-06-582809. Epub 2014 Sep 15.


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

Soffer N, Zaneveld J, Vega Thurber R.

Environ Microbiol. 2015 Apr;17(4):1203-18. doi: 10.1111/1462-2920.12553. Epub 2014 Jul 31.


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. 2015 Apr;64(4):571-9. doi: 10.1136/gutjnl-2013-306625. Epub 2014 May 16.


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.


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.


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.


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.


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.


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.


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.


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.


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.


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.


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.


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.

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