(Q35161789)

6 August 2017

title

Purifying the impure: sequencing metagenomes and metatranscriptomes from complex animal-associated samples (English)

1 reference

6 August 2017

6

Forest Rohwer

1 reference

6 August 2017

Charles E Robertson

4

1 reference

ORCID Public Data File 2021

author name string

Yan Wei Lim

1

1 reference

6 August 2017

Matthew Haynes

2

1 reference

6 August 2017

Mike Furlan

3

1 reference

6 August 2017

J Kirk Harris

5

1 reference

6 August 2017

publication date

22 December 2014

1 reference

Journal of Visualized Experiments

6 August 2017

published in

1 reference

6 August 2017

issue

94

1 reference

Unraveling the unseen players in the ocean - a field guide to water chemistry and marine microbiology

6 August 2017

cites work

1 reference

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28 July 2018

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Mechanistic model of Rothia mucilaginosa adaptation toward persistence in the CF lung, based on a genome reconstructed from metagenomic data

28 July 2018

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Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness

28 July 2018

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The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

28 July 2018

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Reference-independent comparative metagenomics using cross-assembly: crAss.

28 July 2018

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The lung microbiome in moderate and severe chronic obstructive pulmonary disease

28 July 2018

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Computational tools for viral metagenomics and their application in clinical research

28 July 2018

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The adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbations

28 July 2018

1 reference

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Metagenomics and metatranscriptomics: windows on CF-associated viral and microbial communities

28 July 2018

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Evaluation of methods to concentrate and purify ocean virus communities through comparative, replicated metagenomics

28 July 2018

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Towards quantitative metagenomics of wild viruses and other ultra-low concentration DNA samples: a rigorous assessment and optimization of the linker amplification method

28 July 2018

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Metagenomics and future perspectives in virus discovery.

28 July 2018

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The Human Microbiome Project in 2011 and beyond

28 July 2018

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Case studies of the spatial heterogeneity of DNA viruses in the cystic fibrosis lung

28 July 2018

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Amplification methods bias metagenomic libraries of uncultured single-stranded and double-stranded DNA viruses

28 July 2018

1 reference

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UCHIME improves sensitivity and speed of chimera detection

28 July 2018

1 reference

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Topographical continuity of bacterial populations in the healthy human respiratory tract

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Directed culturing of microorganisms using metatranscriptomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Fast identification and removal of sequence contamination from genomic and metagenomic datasets

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Quality control and preprocessing of metagenomic datasets

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludge

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Analysis of high-throughput sequencing and annotation strategies for phage genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Laboratory procedures to generate viral metagenomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Use of ethidium bromide monoazide for quantification of viable and dead mixed bacterial flora from fish fillets by polymerase chain reaction.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Use of 16S rRNA gene profiling by terminal restriction fragment length polymorphism analysis to compare bacterial communities in sputum and mouthwash samples from patients with cystic fibrosis.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Sputum induction as a research tool for sampling the airways of subjects with cystic fibrosis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Base-calling of automated sequencer traces using phred. II. Error probabilities

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Base-calling of automated sequencer traces using phred. I. Accuracy assessment

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Pulsed field gel electrophoresis of bacterial DNA isolated directly from patients' sputa

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Identification of the cystic fibrosis gene: genetic analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Recombinant human DNase I reduces the viscosity of cystic fibrosis sputum

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Basic local alignment search tool

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Explicet: graphical user interface software for metadata-driven management, analysis and visualization of microbiome data

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Sex differences in the gut microbiome drive hormone-dependent regulation of autoimmunity.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Prevention of virus-induced type 1 diabetes with antibiotic therapy

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Metagenomic microbial community profiling using unique clade-specific marker genes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Deciphering the role of phage in the cystic fibrosis airway

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Metagenomic analysis of respiratory tract DNA viral communities in cystic fibrosis and non-cystic fibrosis individuals

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Cystic fibrosis: newborn screening in America.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Microbial community gene expression in ocean surface waters

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

A characterization of DNA release in Pseudomonas aeruginosa cultures and biofilms

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Genomic analysis of uncultured marine viral communities

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Multiple displacement amplification compromises quantitative analysis of metagenomes

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4354477

Use of Percoll density gradients for studying the attachment of bacteria to oral epithelial cells

8 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25549184

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The origin of DNA associated with mucus glycoproteins in cystic fibrosis sputum

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25549184

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.3791/52117

1 reference

6 August 2017

1 reference

6 August 2017

1 reference