Evidence map›Paper›PMID 25844058›Full record

ArticleInternational journal of mass spectrometry2015

Mass spectral similarity for untargeted metabolomics data analysis of complex mixtures.

Neha Garg, Clifford Kapono, Yan Wei Lim, Nobuhiro Koyama, Mark J A Vermeij, Douglas Conrad, Forest Rohwer, Pieter C Dorrestein

Open access · greenAbstract read
In one paragraph

Article in International journal of mass spectrometry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.

0numbers the graph read from it
0cells of the map it votes in
47citing papers in PubMed
3.4field-weighted citation impact, top 7% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

47 citing papers in PubMed, 92 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Metabolome Mining ofMetabolites · 2023
    Article
  7. Article
  8. Article
  9. Article
  10. Article
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  12. Method Validation and Characterization of Red Pigment inJournal of analytical methods in chemistry · 2022
    Article
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  14. Review
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  16. Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors at 4 institutions in 4 countries.

Neha GargSkaggs School of Pharmacy & Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA.
Clifford KaponoDepartment of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California, USA.
Yan Wei LimDepartment of Biology, San Diego State University, San Diego, California, USA.
Nobuhiro KoyamaSkaggs School of Pharmacy & Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA ; School of Pharmacy, Kitasato University, Tokyo, Japan.
Mark J A VermeijCARMABI, Willemstad, Curaçao, & Department of Aquatic Microbiology, University of Amsterdam, Amsterdam, The Netherlands.
Douglas ConradDepartment of Medicine, University of California San Diego, La Jolla, California, USA.
Forest RohwerDepartment of Biology, San Diego State University, San Diego, California, USA.
Pieter C DorresteinSkaggs School of Pharmacy & Pharmaceutical Sciences, University of California at San Diego, La Jolla, California, USA ; Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California, USA ; Department of Pharmacology, University of California at San Diego, La Jolla, California.
University of Montana · USSan Diego State University · USUniversity of California, San Diego · USCaribbean Research and Management of Biodiversity Foundation · CW

Funding

Ecology of Cystic Fibrosis: Administrative SupplementR01GM095384 · NIGMS · SAN DIEGO STATE UNIVERSITY · PI ROHWER, FOREST L · 2011 to 2014
$1.9M
NIGMS NIH HHS R01 GM095384
6 · The paper itself

Abstract

While in nucleotide sequencing, the analysis of DNA from complex mixtures of organisms is common, this is not yet true for mass spectrometric data analysis of complex mixtures. The comparative analyses of mass spectrometry data of microbial communities at the molecular level is difficult to perform, especially in the context of a host. The challenge does not lie in generating the mass spectrometry data, rather much of the difficulty falls in the realm of how to derive relevant information from this data. The informatics based techniques to visualize and organize datasets are well established for metagenome sequencing; however, due to the scarcity of informatics strategies in mass spectrometry, it is currently difficult to cross correlate two very different mass spectrometry data sets from microbial communities and their hosts. We highlight that molecular networking can be used as an organizational tool of tandem mass spectrometry data, automated database search for rapid identification of metabolites, and as a workflow to manage and compare mass spectrometry data from complex mixtures of organisms. To demonstrate this platform, we show data analysis from hard corals and a human lung associated with cystic fibrosis.

Indexed as

complex mixturesCytoscapedatabase searchmass spectrometryMolecular networkingspectral matching

Identifiers

PMID25844058
PMCPMC4379709
OpenAlexW1998512461

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.