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Dan Knights
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QIIME allows analysis of high-throughput community sequencing data
JG Caporaso, J Kuczynski, J Stombaugh, K Bittinger, FD Bushman, ...
Nature methods 7 (5), 335-336, 2010
286292010
Structure, function and diversity of the healthy human microbiome
Human Microbiome Project Consortium
nature 486 (7402), 207, 2012
81382012
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
MGI Langille, J Zaneveld, JG Caporaso, D McDonald, D Knights, ...
Nature biotechnology 31 (9), 814-821, 2013
64882013
Human gut microbiome viewed across age and geography
T Yatsunenko, FE Rey, MJ Manary, I Trehan, MG Dominguez-Bello, ...
nature 486 (7402), 222-227, 2012
63262012
Linking long-term dietary patterns with gut microbial enterotypes
GD Wu, J Chen, C Hoffmann, K Bittinger, YY Chen, SA Keilbaugh, ...
Science 334 (6052), 105-108, 2011
57132011
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ...
Nature biotechnology 37 (8), 852-857, 2019
53082019
The treatment-naive microbiome in new-onset Crohn’s disease
D Gevers, S Kugathasan, LA Denson, Y VŠzquez-Baeza, W Van Treuren, ...
Cell host & microbe 15 (3), 382-392, 2014
24662014
UniFrac: an effective distance metric for microbial community comparison
C Lozupone, ME Lladser, D Knights, J Stombaugh, R Knight
The ISME journal 5 (2), 169-172, 2011
19612011
A framework for human microbiome research
BA Methť, KE Nelson, M Pop, HH Creasy, MG Giglio, C Huttenhower, ...
nature 486 (7402), 215, 2012
19332012
Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans
BD Muegge, J Kuczynski, D Knights, JC Clemente, A GonzŠlez, ...
Science 332 (6032), 970-974, 2011
16312011
Gut microbiomes of Malawian twin pairs discordant for kwashiorkor
MI Smith, T Yatsunenko, MJ Manary, I Trehan, R Mkakosya, J Cheng, ...
Science 339 (6119), 548-554, 2013
10762013
Moving pictures of the human microbiome
JG Caporaso, CL Lauber, EK Costello, D Berg-Lyons, A Gonzalez, ...
Genome biology 12 (5), 1-8, 2011
10702011
Bayesian community-wide culture-independent microbial source tracking
D Knights, J Kuczynski, ES Charlson, J Zaneveld, MC Mozer, RG Collman, ...
Nature methods 8 (9), 761-763, 2011
9662011
Cohabiting family members share microbiota with one another and with their dogs
SJ Song, C Lauber, EK Costello, CA Lozupone, G Humphrey, ...
elife 2, e00458, 2013
9162013
QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, C Abnet, GA Al-Ghalith, ...
PeerJ Preprints, 2018
7222018
The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins
NP McNulty, T Yatsunenko, A Hsiao, JJ Faith, BD Muegge, AL Goodman, ...
Science translational medicine 3 (106), 106ra106-106ra106, 2011
5852011
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
P Yilmaz, R Kottmann, D Field, R Knight, JR Cole, L Amaral-Zettler, ...
Nature biotechnology 29 (5), 415-420, 2011
5622011
Enterotypes in the landscape of gut microbial community composition
PI Costea, F Hildebrand, M Arumugam, F Bšckhed, MJ Blaser, ...
Nature microbiology 3 (1), 8-16, 2018
5182018
A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets
O Koren, D Knights, A Gonzalez, L Waldron, N Segata, R Knight, ...
PLoS computational biology 9 (1), e1002863, 2013
4982013
Systematic improvement of amplicon marker gene methods for increased accuracy in microbiome studies
DM Gohl, P Vangay, J Garbe, A MacLean, A Hauge, A Becker, TJ Gould, ...
Nature biotechnology 34 (9), 942-949, 2016
4652016
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