ArticleJournal of chromatography. B, Analytical technologies in the biomedical and life sciences2017
MetaNetter 2: A Cytoscape plugin for ab initio network analysis and metabolite feature classification.
Article in Journal of chromatography. B, Analytical technologies in the biomedical and life sciences, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- CorrelandJournal of the American Society for Mass Spectrometry · 2026Article
- Environment-specific virocell metabolic reprogramming.The ISME journal · 2024Article
- APEX: an Annotation Propagation Workflow through Multiple Experimental Networks to Improve the Annotation of New Metabolite Classes inAnalytical chemistry · 2023Article
- Metabolite annotation from knowns to unknowns through knowledge-guided multi-layer metabolic networking.Nature communications · 2022Article
- Graph Properties of Mass-Difference Networks for Profiling and Discrimination in Untargeted Metabolomics.Frontiers in molecular biosciences · 2022Article
- Networks and Graphs Discovery in Metabolomics Data Analysis and Interpretation.Frontiers in molecular biosciences · 2022Review
- Seeing the forest for the trees: Retrieving plant secondary biochemical pathways from metabolome networks.Computational and structural biotechnology journal · 2021Review
- Spatial metabolomics of in situ host-microbe interactions at the micrometre scale.Nature microbiology · 2020Article
- Untargeted high-resolution paired mass distance data mining for retrieving general chemical relationships.Communications chemistry · 2020Article
- Untargeted metabolomic profiling ofPlant direct · 2019Article
- Staring into the void: demystifying microbial metabolomics.FEMS microbiology letters · 2019Article
- LC-MS-based plasma metabolomics reveals metabolic variations in ovariectomy-induced osteoporosis in female Wistar rats.RSC advances · 2018Article
- MS/MS-Guided Isolation of Clarinoside, a New Anti-Inflammatory Pentalogin Derivative.Molecules (Basel, Switzerland) · 2018Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Metabolomics frequently relies on the use of high resolution mass spectrometry data. Classification and filtering of this data remain a challenging task due to the plethora of complex mass spectral artefacts, chemical noise, adducts and fragmentation that occur during ionisation and analysis. Additionally, the relationships between detected compounds can provide a wealth of information about the nature of the samples and the biochemistry that gave rise to them. We present a biochemical networking tool: MetaNetter 2 that is based on the original MetaNetter, a Cytoscape plugin that creates ab initio networks. The new version supports two major improvements: the generation of adduct networks and the creation of tables that map adduct or transformation patterns across multiple samples, providing a readout of compound relationships. We have applied this tool to the analysis of adduct patterns in the same sample separated under two different chromatographies, allowing inferences to be made about the effect of different buffer conditions on adduct detection, and the application of the chemical transformation analysis to both a single fragmentation analysis and an all-ions fragmentation dataset. Finally, we present an analysis of a dataset derived from anaerobic and aerobic growth of the organism Staphylococcus aureus demonstrating the utility of the tool for biological analysis.
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Registered trials
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.