(Q57159131)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

title

Quantification of variation and the impact of biomass in targeted 16S rRNA gene sequencing studies (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

author name string

Jeffrey M Bender

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Fan Li

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Helty Adisetiyo

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

David Lee

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Sara Zabih

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Long Hung

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Thomas A Wilkinson

7

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Pia S Pannaraj

8

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Rosemary C She

9

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Jennifer Dien Bard

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

Nicole H Tobin

11

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

language of work or name

English

0 references

publication date

10 September 2018

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

volume

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

issue

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

page(s)

155

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

21 April 2020

phyloseq

object named as

phyloseq

1 reference

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

exact match

https://scigraph.springernature.com/pub.10.1186/s40168-018-0543-z

0 references

cites work

KatharoSeq Enables High-Throughput Microbiome Analysis from Low-Biomass Samples.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The madness of microbiome: Attempting to find consensus "best practice" for 16S microbiome studies.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Optimizing methods and dodging pitfalls in microbiome research

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

A critical assessment of the "sterile womb" and "in utero colonization" hypotheses: implications for research on the pioneer infant microbiome.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The Microbiome and Human Biology.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Normalization and microbial differential abundance strategies depend upon data characteristics

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Large-scale benchmarking reveals false discoveries and count transformation sensitivity in 16S rRNA gene amplicon data analysis methods used in microbiome studies.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The effect of host genetics on the gut microbiome

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Next generation sequencing data of a defined microbial mock community

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Latitude in sample handling and storage for infant faecal microbiota studies: the elephant in the room?

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The effect of DNA extraction methodology on gut microbiota research applications.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Comparison of placenta samples with contamination controls does not provide evidence for a distinct placenta microbiota

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Inherent bacterial DNA contamination of extraction and sequencing reagents may affect interpretation of microbiota in low bacterial biomass samples

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

DADA2: High-resolution sample inference from Illumina amplicon data

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Individuality, Stability, and Variability of the Plaque Microbiome

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Comparing Apples and Oranges?: Next Generation Sequencing and Its Impact on Microbiome Analysis.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The microbiome quality control project: baseline study design and future directions

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Sample storage conditions significantly influence faecal microbiome profiles.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Commensal Bifidobacterium promotes antitumor immunity and facilitates anti-PD-L1 efficacy

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Library preparation methodology can influence genomic and functional predictions in human microbiome research

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The truth about metagenomics: quantifying and counteracting bias in 16S rRNA studies

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Evaluating variation in human gut microbiota profiles due to DNA extraction method and inter-subject differences

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The placenta harbors a unique microbiome

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Microbes in the neonatal intensive care unit resemble those found in the gut of premature infants.

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Stabilization of the murine gut microbiome following weaning

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

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

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Denoising the Denoisers: an independent evaluation of microbiome sequence error-correction approaches

2 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=6131952

Raising standards in microbiome research

30 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/30201048

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/S40168-018-0543-Z

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

21 April 2020

1 reference

9 September 2019

https://scigraph.springernature.com/pub.10.1186/s40168-018-0543-z

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:30201048%20AND%20SRC:MED&resulttype=core&format=json

21 April 2020

1 reference