Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Current challenges in microbiome metadata collection

Gabriel Rosenfeld, Angelina Angelova, Chris Shin, Mariam Quinones, Darrell Hurt
doi: https://doi.org/10.1101/2021.05.05.442781
Gabriel Rosenfeld
1Bioinformatics and Computational Biosciences Branch (BCBB), OCICB/OSMO/OD, National Institute of Allergies and Infectious Diseases, National Institutes of Health, Rockville, MD
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • For correspondence: gabriel.rosenfeld@nih.gov
Angelina Angelova
1Bioinformatics and Computational Biosciences Branch (BCBB), OCICB/OSMO/OD, National Institute of Allergies and Infectious Diseases, National Institutes of Health, Rockville, MD
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Chris Shin
2University of Michigan, Rackham Graduate School, Ann Arbor, MI
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Mariam Quinones
1Bioinformatics and Computational Biosciences Branch (BCBB), OCICB/OSMO/OD, National Institute of Allergies and Infectious Diseases, National Institutes of Health, Rockville, MD
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Darrell Hurt
1Bioinformatics and Computational Biosciences Branch (BCBB), OCICB/OSMO/OD, National Institute of Allergies and Infectious Diseases, National Institutes of Health, Rockville, MD
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Data/Code
  • Preview PDF
Loading

Abstract

While the biomedical community has embraced data sharing (e.g. results, raw data) and supported establishment of large research consortia (e.g. the Human Microbiome Project) aimed to standardize the quality of important sets of microbiome sequencing data, the reusability of most microbiome data is still limited by the quality of its associated metadata. To ensure that microbiome data is indeed FAIR (Findable, Accessible, Interoperable, and Reusable), it is necessary to consider tools and approaches that make it easier to provide high-quality metadata that is fit for purpose moving forward. Such tools and approaches could be informed by current efforts to harmonize and improve the quality of extant microbiome metadata.

Competing Interest Statement

This project has been funded in part with Federal funds from the National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health, Department of Health and Human Services under BCBB Support Services Contract HHSN316201300006W/HHSN27200002 to MSC, Inc. The Bioinformatics and Computational Biosciences Branch developed the Metagenote and Nephele tools described in this article. All views in this manuscript reflect the Authors personal views and do not necessarily reflect those of the National Institutes of Health.

Footnotes

  • https://doi.org/10.6084/m9.figshare.13918190.v1

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. This article is a US Government work. It is not subject to copyright under 17 USC 105 and is also made available for use under a CC0 license.
Back to top
PreviousNext
Posted May 05, 2021.
Download PDF
Data/Code
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Current challenges in microbiome metadata collection
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Current challenges in microbiome metadata collection
Gabriel Rosenfeld, Angelina Angelova, Chris Shin, Mariam Quinones, Darrell Hurt
bioRxiv 2021.05.05.442781; doi: https://doi.org/10.1101/2021.05.05.442781
Digg logo Reddit logo Twitter logo Facebook logo Google logo LinkedIn logo Mendeley logo
Citation Tools
Current challenges in microbiome metadata collection
Gabriel Rosenfeld, Angelina Angelova, Chris Shin, Mariam Quinones, Darrell Hurt
bioRxiv 2021.05.05.442781; doi: https://doi.org/10.1101/2021.05.05.442781

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Scientific Communication and Education
Subject Areas
All Articles
  • Animal Behavior and Cognition (3518)
  • Biochemistry (7373)
  • Bioengineering (5355)
  • Bioinformatics (20349)
  • Biophysics (10058)
  • Cancer Biology (7788)
  • Cell Biology (11360)
  • Clinical Trials (138)
  • Developmental Biology (6456)
  • Ecology (9995)
  • Epidemiology (2065)
  • Evolutionary Biology (13369)
  • Genetics (9378)
  • Genomics (12624)
  • Immunology (7733)
  • Microbiology (19122)
  • Molecular Biology (7482)
  • Neuroscience (41191)
  • Paleontology (301)
  • Pathology (1236)
  • Pharmacology and Toxicology (2145)
  • Physiology (3188)
  • Plant Biology (6885)
  • Scientific Communication and Education (1277)
  • Synthetic Biology (1901)
  • Systems Biology (5332)
  • Zoology (1091)