J
Justin Kuczynski
Researcher at University of Colorado Boulder
Publications - 26
Citations - 42071
Justin Kuczynski is an academic researcher from University of Colorado Boulder. The author has contributed to research in topics: Microbiome & Metagenomics. The author has an hindex of 18, co-authored 25 publications receiving 34951 citations. Previous affiliations of Justin Kuczynski include Howard Hughes Medical Institute.
Papers
More filters
Journal ArticleDOI
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
Journal ArticleDOI
Human gut microbiome viewed across age and geography
Tanya Yatsunenko,Federico E. Rey,Mark J. Manary,Mark J. Manary,Indi Trehan,Indi Trehan,Maria Gloria Dominguez-Bello,Monica Contreras,Magda Magris,Glida Hidalgo,Robert N. Baldassano,Andrey P. Anokhin,Andrew C. Heath,Barbara B. Warner,Jens Reeder,Justin Kuczynski,J. Gregory Caporaso,Catherine A. Lozupone,Christian L. Lauber,Jose C. Clemente,Dan Knights,Rob Knight,Jeffrey I. Gordon +22 more
TL;DR: The need to consider the microbiome when evaluating human development, nutritional needs, physiological variations and the impact of westernization is underscored, as distinctive features of the functional maturation of the gut microbiome are evident in early infancy as well as adulthood.
Journal ArticleDOI
Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans
Brian D. Muegge,Justin Kuczynski,Dan Knights,Jose C. Clemente,Antonio Gonzalez,Luigi Fontana,Luigi Fontana,Bernard Henrissat,Rob Knight,Rob Knight,Jeffrey I. Gordon +10 more
TL;DR: The value of characterizing vertebrate gut microbiomes to understand host evolutionary histories at a supraorganismal level is illustrated by shotgun sequencing of microbial community DNA and targeted sequencing of bacterial 16S ribosomal RNA genes.
Journal ArticleDOI
Bayesian community-wide culture-independent microbial source tracking
Dan Knights,Justin Kuczynski,Emily S. Charlson,Jesse R. Zaneveld,Michael C. Mozer,Ronald G. Collman,Frederic D. Bushman,Rob Knight,Rob Knight,Scott T. Kelley +9 more
TL;DR: SourceTracker, a Bayesian approach to estimate the proportion of contaminants in a given community that come from possible source environments, is presented, and microbial surveys from neonatal intensive care units, offices and molecular biology laboratories are applied.
Journal ArticleDOI
Using QIIME to analyze 16S rRNA gene sequences from Microbial Communities
Justin Kuczynski,Jesse Stombaugh,William A. Walters,Antonio Gonzalez,J. Gregory Caporaso,Rob Knight +5 more
TL;DR: The following protocols describe how to install QIIME on a single computer and use it to analyze microbial 16S sequence data from nine distinct microbial communities.