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Employment (2)

ETH Zurich: Zurich, CH

2020-06-01 to present | Assistant Professor (Health Sciences and Technology)
Employment
Source: Self-asserted source
Nicholas Bokulich

Northern Arizona University: Flagstaff, Arizona, US

2019-08-19 to 2020-05-31 | Assistant Research Professor (Biological Sciences)
Employment
Source: Self-asserted source
Nicholas Bokulich

Works (50 of 76)

Items per page:
Page 1 of 2

Infant behavioral state and stool microbiome in infants receiving Lactocaseibacillus rhamnosus GG in formula: randomized controlled trial

BMC pediatrics
2022 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Multi-omics data integration reveals metabolome as the top predictor of the cervicovaginal microenvironment

PLoS computational biology
2022 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Reproducible acquisition, management and meta-analysis of nucleotide sequence (meta)data using q2-fondue

Bioinformatics
2022-09-20 | Journal article
Part of ISSN: 1367-4803
Part of ISSN: 1460-2059
Contributors: Nicholas Bokulich; Michal Ziemski; Anja Adamov; Lina Kim; Lena Flörl; Nicholas A Bokulich
Source: Self-asserted source
Nicholas Bokulich

Beating naive Bayes at taxonomic classification of 16S rRNA gene sequences

Frontiers in Microbiology
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Cigarette Smoking and Opium Use in Relation to the Oral Microbiota in Iran

Microbiology spectrum
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Effect of bovine milk fat globule membrane and lactoferrin in infant formula on gut microbiome and metabolome at 4 months of age

Current developments in nutrition
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Experiences and lessons learned from two virtual, hands-on microbiome bioinformatics workshops

PLoS computational biology
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Longitudinal assessment of nonavalent vaccine HPV types in a sample of sexually active African American women from ten US Cities

Vaccine
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Lord of the Diptera (and moths and a spider): Molecular diet analyses and foraging ecology of Indiana bats in illinois

Frontiers in Ecology and Evolution
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

RESCRIPt: Reproducible sequence taxonomy reference database management

PLoS computational biology
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Sources and assembly of microbial communities in vineyards as a functional component of winegrowing

Frontiers in Microbiology
2021 | Journal article
Source: Self-asserted source
Nicholas Bokulich

A total crapshoot? Evaluating bioinformatic decisions in animal diet metabarcoding analyses

Ecology and Evolution
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

An early pandemic analysis of SARS-CoV-2 population structure and dynamics in Arizona

MBio
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Composition of the Vaginal Microbiome Associated with High Risk HPV Infection and Increased Risk for Cervical Cancer

Cancer Epidemiology, Biomarkers and Prevention
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Defining the Pandemic at the State Level: Sequence-Based Epidemiology of the SARS-CoV-2 virus by the Arizona COVID-19 Genomics Union (ACGU)

medRxiv
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Integration of multi-omics data improves prediction of cervicovaginal microenvironment in cervical cancer

medRxiv
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Measuring the microbiome: Best practices for developing and benchmarking microbiomics methods

Computational and Structural Biotechnology Journal
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Oral microbial community composition is associated with pancreatic cancer: A case-control study in Iran

Cancer medicine
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Phylogenetic farming: Can evolutionary history predict crop rotation via the soil microbiome?

Evolutionary Applications
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

QIIME 2 enables comprehensive end-to-end analysis of diverse microbiome data and comparative studies with publicly available data

Current protocols in bioinformatics
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Reproducibly sampling SARS-CoV-2 genomes across time, geography, and viral diversity

F1000Research
2020 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Effects of ursodeoxycholic acid on the gut microbiome and colorectal adenoma development

Cancer Medicine
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Learning representations of microbe--metabolite interactions

Nature methods
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Loss of HDAC6 alters gut microbiota and worsens obesity

The FASEB journal
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Rapidly processed stool swabs approximate stool microbiota profiles

Msphere
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

Nature biotechnology
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Species abundance information improves sequence taxonomy classification accuracy

Nature communications
2019 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Fecal microbiota and bile acid interactions with systemic and adipose tissue metabolism in diet-induced weight loss of obese postmenopausal women

Journal of translational medicine
2018 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin

Microbiome
2018 | Journal article
Source: Self-asserted source
Nicholas Bokulich

q2-longitudinal: longitudinal and paired-sample analyses of microbiome data

MSystems
2018 | Journal article
Source: Self-asserted source
Nicholas Bokulich

q2-sample-classifier: machine-learning tools for microbiome classification and regression

Journal of open research software
2018 | Journal article
Source: Self-asserted source
Nicholas Bokulich

A communal catalogue reveals Earth’s multiscale microbial diversity

Nature
2017 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Brewing Microbiology

2017 | Other
Source: Self-asserted source
Nicholas Bokulich

Lack of evidence that ursodeoxycholic acid’s effects on the gut microbiome influence colorectal adenoma risk

bioRxiv
2017 | Journal article
Source: Self-asserted source
Nicholas Bokulich

A new perspective on microbial landscapes within food production

Current opinion in biotechnology
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Antibiotic perturbation of the murine gut microbiome enhances the adiposity, insulin resistance, and liver disease associated with high-fat diet

Genome medicine
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Antibiotics, birth mode, and diet shape microbiome maturation during early life

Science translational medicine
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Associations among wine grape microbiome, metabolome, and fermentation behavior suggest microbial contribution to regional wine characteristics

MBio
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Celecoxib does not alter intestinal microbiome in a longitudinal diet-controlled study

Clinical Microbiology and Infection
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Impact of the [GAR+] prion on fermentation and bacterial community composition with Saccharomyces cerevisiae UCD932

American Journal of Enology and Viticulture
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

mockrobiota: a public resource for microbiome bioinformatics benchmarking

Msystems
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Partial restoration of the microbiota of cesarean-born infants via vaginal microbial transfer

Nature medicine
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Vineyard soil bacterial diversity and composition revealed by 16S rRNA genes: differentiation by vineyard management

Soil Biology and Biochemistry
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Vlcd-induced rapid weight loss is accompanied by enhanced lipolysis, altered adipose tissues with concomitant changes in the fecal microbiome and plasma metabolome

Gastroenterology
2016 | Journal article
Source: Self-asserted source
Nicholas Bokulich

A standardized, extensible framework for optimizing classification improves marker-gene taxonomic assignments

PeerJ PrePrints
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich

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

Journal of proteome research
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Mapping microbial ecosystems and spoilage-gene flow in breweries highlights patterns of contamination and resistance

Elife
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment

Nature communications
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Microbial biogeography of the transnational fermented milk matsoni

Food microbiology
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich

Sulfur dioxide treatment alters wine microbial diversity and fermentation progression in a dose-dependent fashion

American Journal of Enology and Viticulture
2015 | Journal article
Source: Self-asserted source
Nicholas Bokulich
Items per page:
Page 1 of 2

Peer review (6 reviews for 5 publications/grants)

Review activity for Cell systems. (1)
Review activity for Genome biology. (1)
Review activity for ISME communications. (2)
Review activity for Nature food. (1)
Review activity for Nature reviews. (1)