Evidence map›Paper›PMID 32687632›Full record

ArticleMolecular ecology resources2020

Probing SWATH-MS as a tool for proteome level quantification in a nonmodel fish.

Alison A Monroe, Huoming Zhang, Celia Schunter, Timothy Ravasi

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Molecular ecology resources, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
–field-weighted citation impact
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

4 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Article
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

4 authors.

Alison A MonroeDivision of Biological and Environmental Science and Engineering, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.ORCID https://orcid.org/0000-0002-9372-4889
Huoming ZhangKing Abdullah University of Science and Technology, Core Labs, Thuwal, Saudi Arabia.
Celia SchunterSwire Institute of Marine Science, The School of Biological Sciences, The University of Hong Kong, Hong Kong SAR.ORCID https://orcid.org/0000-0003-3620-2731
Timothy RavasiMarine Climate Change Unit, Okinawa Institute of Science and Technology Graduate University (OIST), Onna-son, Japan.ORCID https://orcid.org/0000-0002-9950-465X

Funding

King Abdullah University of Science and Technology OSR-2015-CRG4-2541
6 · The paper itself

Abstract

Quantitative proteomics via mass spectrometry can provide valuable insight into molecular and phenotypic characteristics of a living system. Recent mass spectrometry developments include data-independent acquisition (SWATH/DIA-MS), an accurate, sensitive and reproducible method for analysing the whole proteome. The main requirement for this method is the creation of a comprehensive spectral library. New technologies have emerged producing larger and more accurate species-specific libraries leading to a progressive collection of proteome references for multiple molecular model species. Here, for the first time, we set out to compare different spectral library constructions using multiple tissues from a coral reef fish to demonstrate its value and feasibility for nonmodel organisms. We created a large spectral library composed of 12,553 protein groups from liver and brain tissues. Via identification of differentially expressed proteins under fish exposure to elevated pCO

Indexed as

Gene LibraryProteomeAnimalsFishesMass SpectrometryProteomicsProteomeclimate changedata-independent acquisitionfishquantitative proteomicsspectral librariesSWATH-MS

Identifiers

PMID32687632
PMCPMC7689905

What OpenQuestion holds

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Registered trials

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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.