Publications by authors named "Justin Kuczynski"

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Correction for Zhu et al., "Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy".
Qiyun Zhu, Shi Huang, Antonio Gonzalez, Imran McGrath, Daniel McDonald, Justin Kuczynski

mSystems· November 2024

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Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy.
Qiyun Zhu, Shi Huang, Antonio Gonzalez, Imran McGrath, Daniel McDonald, Justin Kuczynski

mSystems· April 2022

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Gut microbiota in multiple sclerosis: possible influence of immunomodulators.
Brandi L Cantarel, Emmanuelle Waubant, Christel Chehoud, Justin Kuczynski, Todd Z DeSantis

J Investig Med· June 2015

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Identifying qualitative effects of different grazing types on below-ground communities and function in a long-term field experiment.
Catriona A Macdonald, Michael J Crawley, Denis J Wright, Justin Kuczynski, Lucinda Robinson

Environ Microbiol· March 2015

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An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile.
Matthew Miezeiewski, Todd Schnaufer, Michele Muravsky, Su Wang, Ivette Caro-Aguilar, Justin Kuczynski

ISME J· February 2015

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Changes in abundance of oral microbiota associated with oral cancer.
Brian L Schmidt, Justin Kuczynski, Aditi Bhattacharya, Bing Huey, Patricia M Corby

PLoS One· January 2015

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Comparative genomics of the Bifidobacterium breve taxon.
Francesca Bottacini, Mary O'Connell Motherway, Justin Kuczynski, Kerry Joan O'Connell, Fausta Serafini

BMC Genomics· March 2014

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Murine norovirus infection does not cause major disruptions in the murine intestinal microbiota.
Adam M Nelson, Michael D Elftman, Amelia K Pinto, Megan Baldridge, Patrick Hooper, Justin Kuczynski

Microbiome· February 2013

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A microbiota signature associated with experimental food allergy promotes allergic sensitization and anaphylaxis.
Magali Noval Rivas, Oliver T Burton, Petra Wise, Yu-qian Zhang, Suejy A Hobson, Justin Kuczynski

J Allergy Clin Immunol· January 2013

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Using QIIME to analyze 16S rRNA gene sequences from microbial communities.
Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, J Gregory Caporaso

Curr Protoc Microbiol· November 2012

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The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome.
Daniel McDonald, Jose C Clemente, Justin Kuczynski, Jai Ram Rideout, Jesse Stombaugh

Gigascience· July 2012

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Human gut microbiome viewed across age and geography.
Tanya Yatsunenko, Federico E Rey, Mark J Manary, Indi Trehan, Maria Gloria Dominguez-Bello, Justin Kuczynski

Nature· May 2012

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Using QIIME to analyze 16S rRNA gene sequences from microbial communities.
Justin Kuczynski, Jesse Stombaugh, William Anton Walters, Antonio González, J Gregory Caporaso

Curr Protoc Bioinformatics· December 2011

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Experimental and analytical tools for studying the human microbiome.
Justin Kuczynski, Christian L Lauber, William A Walters, Laura Wegener Parfrey, José C Clemente

Nat Rev Genet· December 2011

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Combined phylogenetic and genomic approaches for the high-throughput study of microbial habitat adaptation.
Jesse R R Zaneveld, Laura Wegener Parfrey, Will Van Treuren, Catherine Lozupone, Jose C Clemente, Justin Kuczynski

Trends Microbiol· October 2011

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Bayesian community-wide culture-independent microbial source tracking.
Dan Knights, Justin Kuczynski, Emily S Charlson, Jesse Zaneveld, Michael C Mozer

Nat Methods· July 2011

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Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications.
Pelin Yilmaz, Renzo Kottmann, Dawn Field, Rob Knight, James R Cole, Justin Kuczynski

Nat Biotechnol· May 2011

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Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans.
Brian D Muegge, Justin Kuczynski, Dan Knights, Jose C Clemente, Antonio González

Science· May 2011

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Supervised classification of microbiota mitigates mislabeling errors.
Dan Knights, Justin Kuczynski, Omry Koren, Ruth E Ley, Dawn Field

ISME J· April 2011

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Microbial community resemblance methods differ in their ability to detect biologically relevant patterns.
Justin Kuczynski, Zongzhi Liu, Catherine Lozupone, Daniel McDonald, Noah Fierer

Nat Methods· October 2010

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Direct sequencing of the human microbiome readily reveals community differences.
Justin Kuczynski, Elizabeth K Costello, Diana R Nemergut, Jesse Zaneveld, Christian L Lauber

Genome Biol· September 2010

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QIIME allows analysis of high-throughput community sequencing data.
J Gregory Caporaso, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger, Frederic D Bushman

Nat Methods· May 2010

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