mockrobiota: a Public Resource for Microbiome Bioinformatics Benchmarking (Q39206327)

10 September 2017

mockrobiota: a Public Resource for Microbiome Bioinformatics Benchmarking (English)

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10 September 2017

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Peter J Turnbaugh

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Rob Knight

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object named as

Rob Knight

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10 September 2017

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J Gregory Caporaso

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Jai Ram Rideout

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Nicholas A Bokulich

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10 September 2017

William G Mercurio

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10 September 2017

Arron Shiffer

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Benjamin Wolfe

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10 September 2017

Corinne F Maurice

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Rachel J Dutton

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10 September 2017

1 September 2016

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Systematic improvement of amplicon marker gene methods for increased accuracy in microbiome studies

10 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

DADA2: High-resolution sample inference from Illumina amplicon data

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities.

10 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

NoDe: a fast error-correction algorithm for pyrosequencing amplicon reads

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Accurate read-based metagenome characterization using a hierarchical suite of unique signatures

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Waste not, want not: why rarefying microbiome data is inadmissible

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Towards a unified paradigm for sequence-based identification of fungi

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform.

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Xenobiotics shape the physiology and gene expression of the active human gut microbiome

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

A framework for human microbiome research

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Grinder: a versatile amplicon and shotgun sequence simulator

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

ART: a next-generation sequencing read simulator.

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

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

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

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

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Improved selection of internal transcribed spacer-specific primers enables quantitative, ultra-high-throughput profiling of fungal communities

10 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5080401

Open-Source Sequence Clustering Methods Improve the State Of the Art.

14 September 2017

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PubMed

https://pubmed.ncbi.nlm.nih.gov/27822553

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1128/MSYSTEMS.00062-16

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10 September 2017

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