MICHELINdb: a web-based tool for mining of helminth-microbiota interaction datasets, and a meta-analysis of current research (Q89488070)

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scientific article published on 03 February 2020

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English	MICHELINdb: a web-based tool for mining of helminth-microbiota interaction datasets, and a meta-analysis of current research	scientific article published on 03 February 2020

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6996195

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title

MICHELINdb: a web-based tool for mining of helminth-microbiota interaction datasets, and a meta-analysis of current research (English)

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PMC publication ID

6996195

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main subject

data set

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inferred from title

author

Cinzia Cantacessi

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6

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Europe PubMed Central

PMC publication ID

6996195

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32008578%20AND%20SRC:MED&resulttype=core&format=json

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5 April 2020

author name string

Riccardo Scotti

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1

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PMC publication ID

6996195

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Stuart Southern

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2

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6996195

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5 April 2020

Christine Boinett

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3

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6996195

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5 April 2020

Timothy P Jenkins

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4

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6996195

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5 April 2020

Alba Cortés

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5

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6996195

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publication date

3 February 2020

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6996195

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5 April 2020

published in

Microbiome

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6996195

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5 April 2020

volume

8

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6996195

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issue

1

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6996195

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5 April 2020

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10

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5 April 2020

describes a project that uses

ggplot2

object named as

ggplot2

2 references

stated in

PubMed Central

retrieved

10 June 2022

reference URL

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=6996195

stated in

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

SQL

1 reference

stated in

Europe PubMed Central

retrieved

26 June 2022

reference URL

https://europepmc.org/article/PMC/PMC6996195

based on heuristic

inferred from PubMed Central ID database lookup

phyloseq

object named as

phyloseq

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stated in

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

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reference URL

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12 December 2020

based on heuristic

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Therapeutic helminth infection of macaques with idiopathic chronic diarrhea alters the inflammatory signature and mucosal microbiota of the colon

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Infection with the carcinogenic liver fluke Opisthorchis viverrini modifies intestinal and biliary microbiome.

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Changes in knowledge and practices related to taeniasis/cysticercosis after health education in a south Indian community

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Human schistosomiasis

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Impact of experimental hookworm infection on the human gut microbiota

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helminth colonization is associated with increased diversity of the gut microbiota.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Chasing helminths and their economic impact on farmed ruminants

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The global burden of disease study 2010: interpretation and implications for the neglected tropical diseases

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Commensal-pathogen interactions in the intestinal tract: lactobacilli promote infection with, and are promoted by, helminth parasites

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Controlling parasites, understanding practices: the biosocial complexity of a One Health intervention for neglected zoonotic helminths in northern Lao PDR.

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

S. mansoni bolsters anti-viral immunity in the murine respiratory tract

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

How informative is the mouse for human gut microbiota research?

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Widespread anthelmintic resistance in European farmed ruminants: a systematic review.

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Differences in the faecal microbiome of non-diarrhoeic clinically healthy dogs and cats associated with Giardia duodenalis infection: impact of hookworms and coccidia

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Chronic Trichuris muris Infection in C57BL/6 Mice Causes Significant Changes in Host Microbiota and Metabolome: Effects Reversed by Pathogen Clearance

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Chronic Trichuris muris Infection Decreases Diversity of the Intestinal Microbiota and Concomitantly Increases the Abundance of Lactobacilli

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Interactions between multiple helminths and the gut microbiota in wild rodents

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Type 2 immunity-dependent reduction of segmented filamentous bacteria in mice infected with the helminthic parasite Nippostrongylus brasiliensis.

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Experimental hookworm infection and escalating gluten challenges are associated with increased microbial richness in celiac subjects

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Intestinal Microbiota Contributes to the Ability of Helminths to Modulate Allergic Inflammation.

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The effect of helminth infection on the microbial composition and structure of the caprine abomasal microbiome

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Soil-Transmitted Helminth Reinfection and Associated Risk Factors among School-Age Children in Chencha District, Southern Ethiopia: A Cross-Sectional Study

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of immune cell function by short-chain fatty acids

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Complexities and Perplexities: A Critical Appraisal of the Evidence for Soil-Transmitted Helminth Infection-Related Morbidity

1 reference

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/32008578

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Impact of Helminth Infections and Nutritional Constraints on the Small Intestine Microbiota

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Akkermansia glycaniphila sp. nov., an anaerobic mucin-degrading bacterium isolated from reticulated python faeces

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Changes in duodenal tissue-associated microbiota following hookworm infection and consecutive gluten challenges in humans with coeliac disease

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helminth infections and gut microbiota - a feline perspective

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Human schistosomiasis in the post mass drug administration era.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Calypso: a user-friendly web-server for mining and visualizing microbiome-environment interactions

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helminths in the gastrointestinal tract as modulators of immunity and pathology.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

This Gut Ain't Big Enough for Both of Us. Or Is It? Helminth-Microbiota Interactions in Veterinary Species.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

25 years of serving the community with ribosomal RNA gene reference databases and tools

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Infections by human gastrointestinal helminths are associated with changes in faecal microbiota diversity and composition.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Efficacy of recommended drugs against soil transmitted helminths: systematic review and network meta-analysis

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

MAPseq: highly efficient k-mer search with confidence estimates, for rRNA sequence analysis

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mouse models for human intestinal microbiota research: a critical evaluation

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Effects of deworming on child and maternal health: a literature review and meta-analysis

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Schistosomiasis in the first 1000 days.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The relationships between faecal egg counts and gut microbial composition in UK Thoroughbreds infected by cyathostomins

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The impact of a helminth-modified microbiome on host immunity

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Benchmarking taxonomic assignments based on 16S rRNA gene profiling of the microbiota from commonly sampled environments.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Classic Models for New Perspectives: Delving into Helminth-Microbiota-Immune System Interactions

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Schistosoma mansoni infection is associated with quantitative and qualitative modifications of the mammalian intestinal microbiota

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intestinal fluke Metagonimus yokogawai infection increases probiotic Lactobacillus in mouse cecum

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Altered Gut Microbiota Composition in Subjects Infected With

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A comprehensive analysis of the faecal microbiome and metabolome of Strongyloides stercoralis infected volunteers from a non-endemic area

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helminth parasites and immune regulation

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Modulation of Host Immunity by Helminths: The Expanding Repertoire of Parasite Effector Molecules

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intestinal parasitic infection alters bacterial gut microbiota in children

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Soil-transmitted helminth reinfection four and six months after mass drug administration: results from the delta region of Myanmar

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Helminths and microbes within the vertebrate gut - not all studies are created equal

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/32008578

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

DOI

10.1186/S40168-019-0782-7

1 reference

stated in

Europe PubMed Central

PMC publication ID

6996195

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32008578%20AND%20SRC:MED&resulttype=core&format=json

retrieved

5 April 2020

PMC publication ID

6996195

1 reference

stated in

Europe PubMed Central

PMC publication ID

6996195

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32008578%20AND%20SRC:MED&resulttype=core&format=json

retrieved

5 April 2020

PubMed publication ID

32008578

1 reference

stated in

Europe PubMed Central

PMC publication ID

6996195

reference URL

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:32008578%20AND%20SRC:MED&resulttype=core&format=json

retrieved

5 April 2020

 

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