P. Dorrestein

Publications
Influence

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

E. Bolyen, J. Rideout, +109 authors J. Caporaso
Biology, Medicine
Nature Biotechnology
1 August 2019

QIIME 2 development was primarily funded by NSF Awards 1565100 to J.G.C. and 1565057 to R.K. Partial support was also provided by the following: grants NIH U54CA143925 (J.G.C. and T.P.) and… Expand

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

Mingxun Wang, J. Carver, +124 authors N. Bandeira
Medicine, Biology
Nature Biotechnology
1 August 2016

The potential of the diverse chemistries present in natural products (NP) for biotechnology and medicine remains untapped because NP databases are not searchable with raw data and the NP community… Expand

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

E. Bolyen, J. Rideout, +106 authors J. Caporaso
Computer Science
24 October 2018

We present QIIME 2, an open-source microbiome data science platform accessible to users spanning the microbiome research ecosystem, from scientists and engineers to clinicians and policy makers.… Expand

Ribosomally synthesized and post-translationally modified peptide natural products: overview and recommendations for a universal nomenclature.

P. Arnison, M. Bibb, +62 authors W. A. van der Donk
Medicine, Biology
Natural product reports
2013

This review presents recommended nomenclature for the biosynthesis of ribosomally synthesized and post-translationally modified peptides (RiPPs), a rapidly growing class of natural products. The… Expand

PHF8 Mediates Histone H4 Lysine 20 Demethylation Events Involved in Cell Cycle Progression

W. Liu, Bogdan Tanasa, +11 authors M. Rosenfeld
Medicine, Biology
Nature
11 July 2010

While reversible histone modifications are linked to an ever-expanding range of biological functions, the demethylases for histone H4 lysine 20 and their potential regulatory roles remain unknown.… Expand

Proteomics

B. Garcia, H. Cooper, P. Dorrestein, K. Tang, Beatrix Ueberheide
Medicine
Journal of biomedicine & biotechnology
24 March 2011

1 Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA 2 School of Biosciences, The University of Birmingham, Edgbaston, Birmingham B15 2TT, UK 3 Departments of… Expand

Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle

X. He, J. McLean, +10 authors W. Shi
Biology, Medicine
Proceedings of the National Academy of Sciences
22 December 2014

Significance TM7 is one of the most enigmatic bacterial phyla among the uncultivated candidate phyla referred to as “microbial dark matter,” and it has potential pathogenic associations. We revealed… Expand

American Gut: an Open Platform for Citizen Science Microbiome Research

Daniel McDonald, Embriette R. Hyde, +55 authors R. Knight
Biology, Medicine
mSystems
15 May 2018

We show that a citizen science, self-selected cohort shipping samples through the mail at room temperature recaptures many known microbiome results from clinically collected cohorts and reveals new… Expand

Mass spectral molecular networking of living microbial colonies

Jeramie D. Watrous, P. Roach, +11 authors P. Dorrestein
Medicine, Biology
Proceedings of the National Academy of Sciences
14 May 2012

Integrating the governing chemistry with the genomics and phenotypes of microbial colonies has been a “holy grail” in microbiology. This work describes a highly sensitive, broadly applicable, and… Expand

Minimum Information about a Biosynthetic Gene cluster.

M. Medema, R. Kottmann, +151 authors F. Glöckner
Biology, Medicine
Nature chemical biology
18 August 2015

A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene clusters. Information about these clusters,… Expand

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