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R

Rob Knight

University of PennsylvaniaORCID https://orcid.org/0000-0002-0975-9019

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Publications

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Citations

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Impact (2-yr)

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Top Publications

QIIME allows analysis of high-throughput community sequencing data

Nature Methods201035,655 citations

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

Nature Biotechnology201922,942 citations

UCHIME improves sensitivity and speed of chimera detection

Bioinformatics201115,364 citations

Structure, function and diversity of the healthy human microbiome

Nature201211,749 citations

Structure, function and diversity of the healthy human microbiome

Nature201211,749 citations

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample

Proceedings of the National Academy of Sciences20109,826 citations

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

Nature Biotechnology20139,204 citations

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

The ISME Journal20128,975 citationsCorresponding

UniFrac: a New Phylogenetic Method for Comparing Microbial Communities

Applied and Environmental Microbiology20058,476 citationsCorresponding

Obesity alters gut microbial ecology

Proceedings of the National Academy of Sciences20056,096 citations

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

The ISME Journal20115,278 citations

Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns

Proceedings of the National Academy of Sciences20104,633 citations

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

Nature Biotechnology20164,422 citations

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

Nature Methods20124,344 citations

Soil bacterial and fungal communities across a pH gradient in an arable soil

The ISME Journal20104,057 citations

Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale

Applied and Environmental Microbiology20093,963 citations

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

Genome Research20113,523 citations

PyNAST: a flexible tool for aligning sequences to a template alignment

Bioinformatics20093,457 citations

The Effect of Diet on the Human Gut Microbiome: A Metagenomic Analysis in Humanized Gnotobiotic Mice

Science Translational Medicine20093,073 citations

UniFrac: an effective distance metric for microbial community comparison

The ISME Journal20102,906 citations

Quantitative and Qualitative β Diversity Measures Lead to Different Insights into Factors That Structure Microbial Communities

Applied and Environmental Microbiology20072,705 citationsCorresponding

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

Nature Biotechnology20172,588 citations

Current understanding of the human microbiome

Nature Medicine20182,573 citationsCorresponding

Bayesian community-wide culture-independent microbial source tracking

Nature Methods20111,890 citations

Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients

The ISME Journal20111,828 citations

Best practices for analysing microbiomes

Nature Reviews Microbiology20181,823 citationsFirst authorCorresponding

Species-level functional profiling of metagenomes and metatranscriptomes

Nature Methods20181,723 citations

Worlds within worlds: evolution of the vertebrate gut microbiota

Nature Reviews Microbiology20081,690 citations

High-Fat Diet Determines the Composition of the Murine Gut Microbiome Independently of Obesity

Gastroenterology20091,589 citations

UniFrac – An online tool for comparing microbial community diversity in a phylogenetic context

BMC Bioinformatics20061,461 citationsCorresponding

Examining the global distribution of dominant archaeal populations in soil

The ISME Journal20101,304 citations

A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses

The ISME Journal20091,216 citations

Moving pictures of the human microbiome

Genome biology20111,166 citations

Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data

The ISME Journal20091,118 citations

Cohabiting family members share microbiota with one another and with their dogs

eLife20131,113 citations

Environmental and ecological factors that shape the gut bacterial communities of fish: a meta‐analysis

Molecular Ecology20121,071 citations

Defining seasonal marine microbial community dynamics

The ISME Journal20111,047 citations

Parkinson's disease and Parkinson's disease medications have distinct signatures of the gut microbiome

Movement Disorders2017864 citations

Correlation detection strategies in microbial data sets vary widely in sensitivity and precision

The ISME Journal2016850 citations

Meta‐analyses of human gut microbes associated with obesity and IBD

FEBS Letters2014845 citationsCorresponding

The microbiome of uncontacted Amerindians

Science Advances2015842 citationsCorresponding

The ecology of the phyllosphere: geographic and phylogenetic variability in the distribution of bacteria on tree leaves

Environmental Microbiology2010707 citations

Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys

The ISME Journal2011620 citations

Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes

Environmental Microbiology2010605 citations

Geographic distance and pH drive bacterial distribution in alkaline lake sediments across Tibetan Plateau

Environmental Microbiology2012578 citations

Effect of storage conditions on the assessment of bacterial community structure in soil and human-associated samples

FEMS Microbiology Letters2010473 citations

Global patterns in the biogeography of bacterial taxa

Environmental Microbiology2010459 citations

Dietary effects on human gut microbiome diversity

British Journal Of Nutrition2014452 citationsCorresponding