Evidence map›Paper›PMID 37424942›Full record

ArticleBioinformatics advances2023

MetChem: a new pipeline to explore structural similarity across metabolite modules.

Ebtesam A Abdel-Shafy, Tadele Melak, David A MacIntyre, Giorgia Zadra, Luiz F Zerbini, Silvano Piazza, Stefano Cacciatore

Abstract read
In one paragraph

Article in Bioinformatics advances, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. 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

7 authors.

Ebtesam A Abdel-ShafyBioinformatics Unit, International Centre for Genetic Engineering and Biotechnology, Cape Town 7925, South Africa.
Tadele MelakComputation Biology, International Centre for Genetic Engineering and Biotechnology, Trieste 34149, Italy.
David A MacIntyreMarch of Dimes Prematurity Research Centre, Imperial College London, London SW7 2AZ, UK.
Giorgia ZadraInstitute of Molecular Genetics, National Research Council, Pavia 27100, Italy.
Luiz F ZerbiniCancer Genomics, International Centre for Genetic Engineering and Biotechnology, Cape Town 7925, South Africa.
Silvano PiazzaComputation Biology, International Centre for Genetic Engineering and Biotechnology, Trieste 34149, Italy.
Stefano CacciatoreBioinformatics Unit, International Centre for Genetic Engineering and Biotechnology, Cape Town 7925, South Africa.ORCID https://orcid.org/0000-0001-7052-7156

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Summary: Computational analysis and interpretation of metabolomic profiling data remains a major challenge in translational research. Exploring metabolic biomarkers and dysregulated metabolic pathways associated with a patient phenotype could offer new opportunities for targeted therapeutic intervention. Metabolite clustering based on structural similarity has the potential to uncover common underpinnings of biological processes. To address this need, we have developed the MetChem package. MetChem is a quick and simple tool that allows to classify metabolites in structurally related modules, thus revealing their functional information. Availabilityand implementation: MetChem is freely available from the R archive CRAN (http://cran.r-project.org). The software is distributed under the GNU General Public License (version 3 or later).

Identifiers

PMID37424942
PMCPMC10322652

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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.