Deep sequencing of the oral microbiome reveals signatures of periodontal disease (Q34279567)

1 August 2017

Deep sequencing of the oral microbiome reveals signatures of periodontal disease (English)

1 reference

1 August 2017

0 references

15

1 reference

1 August 2017

Salomon Amar

16

0 references

author name string

Bo Liu

1

1 reference

1 August 2017

Lina L Faller

2

1 reference

1 August 2017

Niels Klitgord

3

1 reference

1 August 2017

Varun Mazumdar

4

1 reference

1 August 2017

Mohammad Ghodsi

5

1 reference

1 August 2017

Daniel D Sommer

6

1 reference

1 August 2017

Theodore R Gibbons

7

1 reference

1 August 2017

Todd J Treangen

8

1 reference

1 August 2017

Yi-Chien Chang

9

1 reference

1 August 2017

Shan Li

10

1 reference

1 August 2017

O Colin Stine

11

1 reference

1 August 2017

Hatice Hasturk

12

1 reference

1 August 2017

Simon Kasif

13

1 reference

1 August 2017

Daniel Segrè

14

1 reference

1 August 2017

language of work or name

English

0 references

publication date

4 June 2012

1 reference

1 August 2017

1 reference

1 August 2017

7

1 reference

1 August 2017

e37919

1 reference

1 August 2017

6

1 reference

Creative Commons Attribution 4.0 International

1 August 2017

start time

4 June 2012

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

MUMmer

object named as

MUMmer

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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Beyond the oral microbiome

6 July 2018

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Oral microbiome profiles: 16S rRNA pyrosequencing and microarray assay comparison

6 July 2018

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6 July 2018

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Comparative genomic analysis of Vibrio parahaemolyticus: serotype conversion and virulence

6 July 2018

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6 July 2018

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Autoimmune responses in periodontal diseases

6 July 2018

1 reference

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Mechanisms involved in the association between periodontal diseases and cardiovascular disease

6 July 2018

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Environments that induce synthetic microbial ecosystems

6 July 2018

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COMBREX: a project to accelerate the functional annotation of prokaryotic genomes

6 July 2018

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Succession of microbial consortia in the developing infant gut microbiome

6 July 2018

1 reference

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The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information

6 July 2018

1 reference

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Periodontitis: a polymicrobial disruption of host homeostasis

6 July 2018

1 reference

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State of the art de novo assembly of human genomes from massively parallel sequencing data

6 July 2018

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Carbon metabolism of intracellular bacterial pathogens and possible links to virulence

6 July 2018

1 reference

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Bacterial diversity in the oral cavity of 10 healthy individuals

6 July 2018

1 reference

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A human gut microbial gene catalogue established by metagenomic sequencing

6 July 2018

1 reference

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Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes.

6 July 2018

1 reference

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De novo assembly of human genomes with massively parallel short read sequencing

6 July 2018

1 reference

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Defining the healthy"core microbiome" of oral microbial communities

6 July 2018

1 reference

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Circos: an information aesthetic for comparative genomics

6 July 2018

1 reference

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Statistical methods for detecting differentially abundant features in clinical metagenomic samples

6 July 2018

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

6 July 2018

1 reference

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Next-generation sequencing: from basic research to diagnostics

6 July 2018

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A bioinformatician's guide to metagenomics

6 July 2018

1 reference

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Metabolic network model of a human oral pathogen.

6 July 2018

1 reference

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ARDB--Antibiotic Resistance Genes Database

6 July 2018

1 reference

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Bacterial quorum sensing: signals, circuits, and implications for biofilms and disease.

6 July 2018

1 reference

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Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals

6 July 2018

1 reference

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Diversity predicts stability and resource use efficiency in natural phytoplankton communities.

6 July 2018

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Global trends in emerging infectious diseases

6 July 2018

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Microbiological diversity of generalized aggressive periodontitis by 16S rRNA clonal analysis.

6 July 2018

1 reference

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iPath: interactive exploration of biochemical pathways and networks

6 July 2018

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Where are all the new antibiotics? The new antibiotic paradox

6 July 2018

1 reference

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Interspecies interactions within oral microbial communities

6 July 2018

1 reference

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The human microbiome project

6 July 2018

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Orthologous transcription factors in bacteria have different functions and regulate different genes

6 July 2018

1 reference

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Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth

6 July 2018

1 reference

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Omega-3 fatty acid regulates inflammatory cytokine/mediator messenger RNA expression in Porphyromonas gingivalis-induced experimental periodontal disease

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Targeted access to the genomes of low-abundance organisms in complex microbial communities.

6 July 2018

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Minimus: a fast, lightweight genome assembler

6 July 2018

1 reference

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MEGAN analysis of metagenomic data

6 July 2018

1 reference

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MetaGene: prokaryotic gene finding from environmental genome shotgun sequences

6 July 2018

1 reference

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Inference of population genetic parameters in metagenomics: a clean look at messy data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The breadth of bacterial diversity in the human periodontal pocket and other oral sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Catonella morbi and Granulicatella adiacens: new species in endodontic infections

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Bacterial regulatory networks are extremely flexible in evolution

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Determining the antibiotic resistance potential of the indigenous oral microbiota of humans using a metagenomic approach

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Ecological and evolutionary forces shaping microbial diversity in the human intestine

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The contribution of species richness and composition to bacterial services

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Identification of candidate periodontal pathogens and beneficial species by quantitative 16S clonal analysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The clinical significance of anaerobic bacteria in acute orofacial odontogenic infections

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Glyceraldehyde-3-phosphate dehydrogenase of Streptococcus oralis functions as a coadhesin for Porphyromonas gingivalis major fimbriae

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Versatile and open software for comparing large genomes

6 July 2018

1 reference

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Quorum sensing and biofilm formation in Streptococcal infections

6 July 2018

1 reference

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Regulation of biosynthesis and transport of aromatic amino acids in low-GC Gram-positive bacteria.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Prevalence of bacteria of division TM7 in human subgingival plaque and their association with disease

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Evolutionary implications of microbial genome tetranucleotide frequency biases

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Metabolic modelling of microbes: the flux-balance approach

6 July 2018

1 reference

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The rise and fall of antimicrobial resistance

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Microbiology of periodontal disease in children and young adults

6 July 2018

1 reference

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Periodontal pathogens produce quorum sensing signal molecules

6 July 2018

1 reference

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KEGG: kyoto encyclopedia of genes and genomes

6 July 2018

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Prokaryotes: the unseen majority

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Microbial complexes in subgingival plaque

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

The effect of codon usage on the oligonucleotide composition of the E. coli genome and identification of over- and underrepresented sequences by Markov chain analysis.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Isolation of a bacteriophage for actinomyces viscosus.

6 July 2018

1 reference

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Subgingival microflora and periodontal disease

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3366996

Antibiotic resistance profile of the subgingival microbiota following systemic or local tetracycline therapy.

6 July 2018

1 reference

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Emergent cooperation in microbial metabolism

21 January 2018

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Pyrosequencing analysis of the oral microflora of healthy adults

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0037919

Content and composition of fatty acids in normal and inflamed gingival tissues

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0037919

Prevalence and antibiotic resistance profile of mercury-resistant oral bacteria from children with and without mercury amalgam fillings

21 January 2018

1 reference

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Pilot study of dietary fatty acid supplementation in the treatment of adult periodontitis

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0037919

Acceleration of purine degradation by periodontal diseases

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0037919

Streptococcus agalactiae GAPDH is a virulence-associated immunomodulatory protein.

21 January 2018

1 reference

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Oral streptococcal glyceraldehyde-3-phosphate dehydrogenase mediates interaction with Porphyromonas gingivalis fimbriae

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0037919

GSEA-P: a desktop application for Gene Set Enrichment Analysis.

21 January 2018

1 reference

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[Antibiotic resistance in the subgingival microflora in patients with adult periodontitis. A comparative survey between Spain and the Netherlands]

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22675498

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Site-specific development of periodontal disease is associated with increased levels of Porphyromonas gingivalis, Treponema denticola, and Tannerella forsythia in subgingival plaque

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22675498

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Pilot study on n-3 polyunsaturated fatty acids in the treatment of human experimental gingivitis

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22675498

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0037919

1 reference

1 August 2017

0 references

1 reference

1 August 2017

1 reference