List of works - Dan Knights

A Microbiome Foundation for the Study of Crohn's Disease

scientific article published on March 2017

A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets

scientific article

A microbial clock provides an accurate estimate of the postmortem interval in a mouse model system ⬇️

scientific article

Advancing the microbiome research community

scientific article

American Gut: an Open Platform for Citizen Science Microbiome Research

article

Anal gas evacuation and colonic microbiota in patients with flatulence: effect of diet

scientific article

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

scientific article published on 01 September 2019

Bacterial community structures are unique and resilient in full-scale bioenergy systems

scientific article

Bayesian community-wide culture-independent microbial source tracking

scientific article published on 17 July 2011

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

scientific article

Combined phylogenetic and genomic approaches for the high-throughput study of microbial habitat adaptation

scientific article (publication date: October 2011)

Composition of human skin microbiota affects attractiveness to malaria mosquitoes

scientific article published in 2011

Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans

scientific article (publication date: 20 May 2011)

Direct sequencing of the human microbiome readily reveals community differences

scientific article

Dynamic changes in short- and long-term bacterial composition following fecal microbiota transplantation for recurrent Clostridium difficile infection

scientific article published on 30 March 2015

Enterotypes in the landscape of gut microbial community composition.

scientific article published on 18 December 2017

Evaluating the Information Content of Shallow Shotgun Metagenomics

scientific article published on 13 November 2018

Gut microbiomes of Malawian twin pairs discordant for kwashiorkor

scientific article published on 30 January 2013

Human gut microbiome viewed across age and geography

scientific article

Human-associated microbial signatures: examining their predictive value

scientific article

Insights from characterizing extinct human gut microbiomes

scientific article

Linking long-term dietary patterns with gut microbial enterotypes

scientific article

Microbial biogeography of public restroom surfaces

scientific article published on 23 November 2011

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

scientific article

Moving pictures of the human microbiome

scientific article published in 2011

Nurture trumps nature in a longitudinal survey of salivary bacterial communities in twins from early adolescence to early adulthood

scientific article

Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat.

scientific article

Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea

scientific article published on 02 December 2019

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

scientific article (publication date: September 2013)

Publisher Correction: Enterotypes in the landscape of gut microbial community composition

scientific article published on 13 February 2018

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

QIIME allows analysis of high-throughput community sequencing data

scientific article

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

scientific article published on 01 August 2019

Rethinking "enterotypes".

scientific article

SHOGUN: a modular, accurate, and scalable framework for microbiome quantification

scientific article published on 04 May 2020

Supervised classification of human microbiota

scientific article

Supervised classification of microbiota mitigates mislabeling errors

scientific article

The gut microbiome of nonhuman primates: Lessons in ecology and evolution

scientific article published on 04 June 2018

The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins

scientific article published in October 2011

The treatment-naive microbiome in new-onset Crohn's disease

scientific article

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

UniFrac: an effective distance metric for microbial community comparison

scientific article

List of works by Dan Knights

A Microbiome Foundation for the Study of Crohn's Disease

A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets

A microbial clock provides an accurate estimate of the postmortem interval in a mouse model system ⬇️

Advancing the microbiome research community

American Gut: an Open Platform for Citizen Science Microbiome Research

Anal gas evacuation and colonic microbiota in patients with flatulence: effect of diet

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

Bacterial community structures are unique and resilient in full-scale bioenergy systems

Bayesian community-wide culture-independent microbial source tracking

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

Combined phylogenetic and genomic approaches for the high-throughput study of microbial habitat adaptation

Composition of human skin microbiota affects attractiveness to malaria mosquitoes

Diet drives convergence in gut microbiome functions across mammalian phylogeny and within humans

Direct sequencing of the human microbiome readily reveals community differences

Dynamic changes in short- and long-term bacterial composition following fecal microbiota transplantation for recurrent Clostridium difficile infection

Enterotypes in the landscape of gut microbial community composition.

Evaluating the Information Content of Shallow Shotgun Metagenomics

Gut microbiomes of Malawian twin pairs discordant for kwashiorkor

Human gut microbiome viewed across age and geography

Human-associated microbial signatures: examining their predictive value

Insights from characterizing extinct human gut microbiomes

Linking long-term dietary patterns with gut microbial enterotypes

Microbial biogeography of public restroom surfaces

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

Moving pictures of the human microbiome

Nurture trumps nature in a longitudinal survey of salivary bacterial communities in twins from early adolescence to early adulthood

Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat.

Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea

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

Publisher Correction: Enterotypes in the landscape of gut microbial community composition

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

QIIME allows analysis of high-throughput community sequencing data

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

Rethinking "enterotypes".

SHOGUN: a modular, accurate, and scalable framework for microbiome quantification

Supervised classification of human microbiota

Supervised classification of microbiota mitigates mislabeling errors

The gut microbiome of nonhuman primates: Lessons in ecology and evolution

The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins

The treatment-naive microbiome in new-onset Crohn's disease

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

The “Minimum Information about an ENvironmental Sequence” (MIENS) specification

UniFrac: an effective distance metric for microbial community comparison