Nicholas A. Bokulich

Best Publications

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

  Evan Bolyen;Jai Ram Rideout;Matthew R. Dillon;Nicholas A. Bokulich

  21851
  Citations

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

  Nicholas A. Bokulich;Benjamin D. Kaehler;Jai Ram Rideout;Matthew Dillon

  5638
  Citations

• Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing.

  Nicholas A Bokulich;Sathish Subramanian;Jeremiah J Faith;Dirk Gevers

  4476
  Citations

• Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.

  Evan Bolyen;Jai Ram Rideout;Matthew R. Dillon;Nicholas A. Bokulich

  4019
  Citations

• A communal catalogue reveals Earth’s multiscale microbial diversity

  Luke R. Thompson;Luke R. Thompson;Luke R. Thompson;Jon G. Sanders;Daniel McDonald;Amnon Amir

  2721
  Citations

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

  Nicholas A. Bokulich;Jennifer Chung;Thomas Battaglia;Nora Henderson

  1521
  Citations

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

  Maria G Dominguez-Bello;Maria G Dominguez-Bello;Kassandra M De Jesus-Laboy;Nan Shen;Laura M Cox

  1088
  Citations

• Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate

  Nicholas A. Bokulich;John H. Thorngate;Paul M. Richardson;David A. Mills

  1056
  Citations

• QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science

  Evan Bolyen;Jai Ram Rideout;Matthew R Dillon;Nicholas A Bokulich

  992
  Citations

• The Soil Microbiome Influences Grapevine-Associated Microbiota

  Iratxe Zarraonaindia;Iratxe Zarraonaindia;Sarah M. Owens;Sarah M. Owens;Pamela Weisenhorn;Kristin West

  931
  Citations

• Improved Selection of Internal Transcribed Spacer-Specific Primers Enables Quantitative, Ultra-High-Throughput Profiling of Fungal Communities

  Nicholas A. Bokulich;David A. Mills

  592
  Citations

• QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data.

  Mehrbod Estaki;Lingjing Jiang;Nicholas A. Bokulich;Daniel McDonald

  510
  Citations

• Associations among Wine Grape Microbiome, Metabolome, and Fermentation Behavior Suggest Microbial Contribution to Regional Wine Characteristics

  Nicholas A. Bokulich;Thomas S. Collins;Chad Masarweh;Greg Allen

  444
  Citations

• The Microbiology of Malting and Brewing

  Unknown

  412
  Citations

• Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment

  Yael R. Nobel;Laura M. Cox;Francis F. Kirigin;Nicholas A. Bokulich

  402
  Citations

• Facility-Specific House Microbiome Drives Microbial Landscapes of Artisan Cheesemaking Plants

  Nicholas A. Bokulich;David A. Mills

  320
  Citations

• q2-longitudinal: Longitudinal and Paired-Sample Analyses of Microbiome Data.

  Nicholas A. Bokulich;Matthew R. Dillon;Yilong Zhang;Jai Ram Rideout

  298
  Citations

• Learning representations of microbe–metabolite interactions

  James T. Morton;Alexander A. Aksenov;Alexander A. Aksenov;Louis Felix Nothias;Louis Felix Nothias;James R. Foulds

  297
  Citations

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

  Nicholas A. Bokulich;Matthew R Dillon;Evan Bolyen;Benjamin D Kaehler

  243
  Citations

• Brewhouse-resident microbiota are responsible for multi-stage fermentation of American coolship ale.

  Nicholas A. Bokulich;Charles W. Bamforth;David A. Mills

  240
  Citations