Sequence depth, not PCR replication, improves ecological inference from next generation DNA sequencing (Q35108872)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

title

Sequence depth, not PCR replication, improves ecological inference from next generation DNA sequencing (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

1 reference

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

author name string

Dylan P Smith

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

language of work or name

English

0 references

publication date

28 February 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

volume

9

1 reference

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9 March 2020

issue

2

1 reference

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9 March 2020

page(s)

e90234

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Creative Commons Attribution 4.0 International

9 March 2020

copyright license

start time

28 February 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

maintained by WikiProject

1 reference

UPARSE: highly accurate OTU sequences from microbial amplicon reads

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Strong coupling of plant and fungal community structure across western Amazonian rainforests

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Fungal community analysis by high-throughput sequencing of amplified markers--a user's guide

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Digging the New York City Skyline: soil fungal communities in green roofs and city parks

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Unravelling soil fungal communities from different Mediterranean land-use backgrounds

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

PANDAseq: paired-end assembler for illumina sequences

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Sampling and pyrosequencing methods for characterizing bacterial communities in the human gut using 16S sequence tags

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

QIIME allows analysis of high-throughput community sequencing data

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Diversity in a hidden world: potential and limitation of next-generation sequencing for surveys of molecular diversity of eukaryotic microorganisms

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Global patterns in belowground communities.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Accurate determination of microbial diversity from 454 pyrosequencing data

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

The rational exploration of microbial diversity

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

The marine viromes of four oceanic regions

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

ITS primers with enhanced specificity for basidiomycetes--application to the identification of mycorrhizae and rusts

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

New primers to amplify the fungal ITS2 region--evaluation by 454-sequencing of artificial and natural communities.

9 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Measuring ectomycorrhizal fungal dispersal: macroecological patterns driven by microscopic propagules.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Quantifying microbial communities with 454 pyrosequencing: does read abundance count?

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Assessment of bias associated with incomplete extraction of microbial DNA from soil.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3938664

Illumina metabarcoding of a soil fungal community

27 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0090234

Cutadapt removes adapter sequences from high-throughput sequencing reads

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0090234

AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0090234

Insidious effects of sequencing errors on perceived diversity in molecular surveys

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24587293

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0090234

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json

9 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24587293%20AND%20SRC:MED&resulttype=core&format=json