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Nicholas Bokulich
Nicholas Bokulich
ETH Zürich
Verifisert e-postadresse på ethz.ch - Startside
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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
186082019
Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin
NA Bokulich, BD Kaehler, JR Rideout, M Dillon, E Bolyen, R Knight, ...
Microbiome 6, 1-17, 2018
46722018
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing
NA Bokulich, S Subramanian, JJ Faith, D Gevers, JI Gordon, R Knight, ...
Nature methods 10 (1), 57-59, 2013
41582013
A communal catalogue reveals Earth’s multiscale microbial diversity
LR Thompson, JG Sanders, D McDonald, A Amir, J Ladau, KJ Locey, ...
Nature 551 (7681), 457-463, 2017
25232017
Antibiotics, birth mode, and diet shape microbiome maturation during early life
NA Bokulich, J Chung, T Battaglia, N Henderson, M Jay, H Li, A D. Lieber, ...
Science translational medicine 8 (343), 343ra82-343ra82, 2016
15252016
Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer
MG Dominguez-Bello, KM De Jesus-Laboy, N Shen, LM Cox, A Amir, ...
Nature medicine 22 (3), 250-253, 2016
11212016
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate
NA Bokulich, JH Thorngate, PM Richardson, DA Mills
Proceedings of the National Academy of Sciences 111 (1), E139-E148, 2014
10182014
The soil microbiome influences grapevine-associated microbiota
I Zarraonaindia, SM Owens, P Weisenhorn, K West, J Hampton-Marcell, ...
MBio 6 (2), 10.1128/mbio. 02527-14, 2015
8732015
RESCRIPt: Reproducible sequence taxonomy reference database management
MS Robeson, DR O’Rourke, BD Kaehler, M Ziemski, MR Dillon, JT Foster, ...
PLoS computational biology 17 (11), e1009581, 2021
6252021
Improved selection of internal transcribed spacer-specific primers enables quantitative, ultra-high-throughput profiling of fungal communities
NA Bokulich, DA Mills
Applied and environmental microbiology 79 (8), 2519-2526, 2013
5412013
The microbiology of malting and brewing
NA Bokulich, CW Bamforth
Microbiology and Molecular Biology Reviews 77 (2), 157-172, 2013
4692013
Associations among wine grape microbiome, metabolome, and fermentation behavior suggest microbial contribution to regional wine characteristics
NA Bokulich, TS Collins, C Masarweh, G Allen, H Heymann, SE Ebeler, ...
MBio 7 (3), 10.1128/mbio. 00631-16, 2016
4342016
Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment
YR Nobel, LM Cox, FF Kirigin, NA Bokulich, S Yamanishi, I Teitler, ...
Nature communications 6 (1), 7486, 2015
3962015
QIIME 2 enables comprehensive end‐to‐end analysis of diverse microbiome data and comparative studies with publicly available data
M Estaki, L Jiang, NA Bokulich, D McDonald, A González, T Kosciolek, ...
Current protocols in bioinformatics 70 (1), e100, 2020
3732020
Facility-specific “house” microbiome drives microbial landscapes of artisan cheesemaking plants
NA Bokulich, DA Mills
Applied and environmental microbiology 79 (17), 5214-5223, 2013
3122013
Next-generation sequencing reveals significant bacterial diversity of botrytized wine
NA Bokulich, CML Joseph, G Allen, AK Benson, DA Mills
PloS one 7 (5), e36357, 2012
2822012
Learning representations of microbe–metabolite interactions
JT Morton, AA Aksenov, LF Nothias, JR Foulds, RA Quinn, MH Badri, ...
Nature methods 16 (12), 1306-1314, 2019
2702019
q2-longitudinal: longitudinal and paired-sample analyses of microbiome data
NA Bokulich, MR Dillon, Y Zhang, JR Rideout, E Bolyen, H Li, PS Albert, ...
MSystems 3 (6), 10.1128/msystems. 00219-18, 2018
2512018
Human milk glycomics and gut microbial genomics in infant feces show a correlation between human milk oligosaccharides and gut microbiota: a proof-of-concept study
MLA De Leoz, KM Kalanetra, NA Bokulich, JS Strum, MA Underwood, ...
Journal of proteome research 14 (1), 491-502, 2015
2362015
Brewhouse-resident microbiota are responsible for multi-stage fermentation of American coolship ale
NA Bokulich, CW Bamforth, DA Mills
PloS one 7 (4), e35507, 2012
2302012
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Artikler 1–20