(Q29615050)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

8 March 2020

title

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

2 references

PubMed

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

30 April 2017

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8 March 2020

1

1 reference

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8 March 2020

Rob Knight

10

1 reference

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8 March 2020

Curtis Huttenhower

12

1 reference

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8 March 2020

3

J Gregory Caporaso

1 reference

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8 March 2020

4

Daniel McDonald

1 reference

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8 March 2020

5

Dan Knights

1 reference

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8 March 2020

7

Jose C Clemente

1 reference

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8 March 2020

2

Jesse Zaneveld

1 reference

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8 March 2020

8

Deron E Burkepile

1 reference

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8 March 2020

9

Rebecca L Vega Thurber

1 reference

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8 March 2020

author name string

Joshua A Reyes

6

1 reference

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8 March 2020

Robert G Beiko

11

1 reference

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

8 March 2020

language of work or name

1 reference

30 April 2017

publication date

25 August 2013

1 reference

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8 March 2020

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

8 March 2020

volume

31

2 references

PubMed

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30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

8 March 2020

issue

9

2 references

PubMed

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

8 March 2020

page(s)

814-821

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

8 March 2020

cites work

1 reference

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Metabolic reconstruction for metagenomic data and its application to the human microbiome

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Structure, function and diversity of the healthy human microbiome

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Unlocking the potential of metagenomics through replicated experimental design

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

The human microbiome: at the interface of health and disease

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

IMG: the Integrated Microbial Genomes database and comparative analysis system

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

The NCBI Taxonomy database

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

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

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Microbial to reef scale interactions between the reef-building coral Montastraea annularis and benthic algae

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

KEGG for integration and interpretation of large-scale molecular data sets

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

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

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

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

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

An insect herbivore microbiome with high plant biomass-degrading capacity

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Search and clustering orders of magnitude faster than BLAST

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

QIIME allows analysis of high-throughput community sequencing data

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Bacterial community variation in human body habitats across space and time

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Shifting baselines, local impacts, and global change on coral reefs

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Evolution of symbiotic bacteria in the distal human intestine

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

APE: Analyses of Phylogenetics and Evolution in R language

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Lateral Gene Transfer and the Origins of Prokaryotic Groups

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Genome phylogeny based on gene content

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

A genomic perspective on protein families

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Cross-biome metagenomic analyses of soil microbial communities and their functional attributes.

30 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Phylogenetic conservatism of functional traits in microorganisms

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Incorporating 16S gene copy number information improves estimates of microbial diversity and abundance

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Lateral gene transfer of an ABC transporter complex between major constituents of the human gut microbiome.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Measures of phylogenetic differentiation provide robust and complementary insights into microbial communities

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Temporal dynamics of the human vaginal microbiota

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Macroalgal terpenes function as allelopathic agents against reef corals

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Toward an efficient method of identifying core genes for evolutionary and functional microbial phylogenies

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

A global network of coexisting microbes from environmental and whole-genome sequence data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Direct sequencing of the human microbiome readily reveals community differences

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Analysis of membrane proteins in metagenomics: networks of correlated environmental features and protein families

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Ribosomal RNA diversity predicts genome diversity in gut bacteria and their relatives

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Identifying biologically relevant differences between metagenomic communities

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

What's in the mix: phylogenetic classification of metagenome sequence samples

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Genomic insights that advance the species definition for prokaryotes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Testing the infinitely many genes model for the evolution of the bacterial core genome and pangenome

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Ecology drives a global network of gene exchange connecting the human microbiome.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Aerobic and anaerobic bacteria in subgingival and supragingival plaques of adult patients with periodontal disease.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Indirect effects of algae on coral: algae-mediated, microbe-induced coral mortality

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

Horizontal gene transfer in the molecular evolution of mannose PTS transporters.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3819121

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

26 November 2018

Identifiers

3 references

30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

8 March 2020

1034019934

0 references

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

3 references

30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=23975157

8 March 2020

PubMed publication ID

3 references

30 April 2017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23975157%20AND%20SRC:MED&resulttype=core&format=json