Comprehensive investigation of pathway enrichment methods for functional interpretation of LC–MS global metabolomics data
Background: Global or untargeted metabolomics is widely used to comprehensively
investigate metabolic profiles under various pathophysiological conditions such as …
investigate metabolic profiles under various pathophysiological conditions such as …
[HTML][HTML] Evaluation and comparison of bioinformatic tools for the enrichment analysis of metabolomics data
A Marco-Ramell, M Palau-Rodriguez, A Alay… - BMC …, 2018 - Springer
Background Bioinformatic tools for the enrichment of 'omics' datasets facilitate interpretation
and understanding of data. To date few are suitable for metabolomics datasets. The main …
and understanding of data. To date few are suitable for metabolomics datasets. The main …
[HTML][HTML] Advantages and pitfalls of mass spectrometry based metabolome profiling in systems biology
I Aretz, D Meierhofer - International journal of molecular sciences, 2016 - mdpi.com
Mass spectrometry-based metabolome profiling became the method of choice in systems
biology approaches and aims to enhance biological understanding of complex biological …
biology approaches and aims to enhance biological understanding of complex biological …
[HTML][HTML] MarVis-Pathway: integrative and exploratory pathway analysis of non-targeted metabolomics data
A Kaever, M Landesfeind, K Feussner, A Mosblech… - Metabolomics, 2015 - Springer
A central aim in the evaluation of non-targeted metabolomics data is the detection of
intensity patterns that differ between experimental conditions as well as the identification of …
intensity patterns that differ between experimental conditions as well as the identification of …
MMEASE: online meta-analysis of metabolomic data by enhanced metabolite annotation, marker selection and enrichment analysis
Large-scale and long-term metabolomic studies have attracted widespread attention in the
biomedical studies yet remain challenging despite recent technique progresses. In …
biomedical studies yet remain challenging despite recent technique progresses. In …
[HTML][HTML] Good practices and recommendations for using and benchmarking computational metabolomics metabolite annotation tools
NF de Jonge, K Mildau, D Meijer, JJR Louwen… - Metabolomics, 2022 - Springer
Background Untargeted metabolomics approaches based on mass spectrometry obtain
comprehensive profiles of complex biological samples. However, on average only 10% of …
comprehensive profiles of complex biological samples. However, on average only 10% of …
Advanced analytical and informatic strategies for metabolite annotation in untargeted metabolomics
Liquid chromatography–mass spectrometry (LC–MS)-based untargeted metabolomics is
constantly challenged by large-scale and unambiguous metabolite annotation in complex …
constantly challenged by large-scale and unambiguous metabolite annotation in complex …
Enhancing metabolome coverage in data-dependent LC–MS/MS analysis through an integrated feature extraction strategy
In untargeted metabolomics, conventional data preprocessing software (eg, XCMS, MZmine
2, MS-DIAL) are used extensively due to their high efficiency in metabolic feature extraction …
2, MS-DIAL) are used extensively due to their high efficiency in metabolic feature extraction …
[HTML][HTML] Bioinformatics: the next frontier of metabolomics
Bioinformatic tools are required to carry out essential functions such as statistical analyses
and database functionalities. Now, they are also needed for one of the most difficult tasks …
and database functionalities. Now, they are also needed for one of the most difficult tasks …
Automated workflows for accurate mass-based putative metabolite identification in LC/MS-derived metabolomic datasets
Motivation: The study of metabolites (metabolomics) is increasingly being applied to
investigate microbial, plant, environmental and mammalian systems. One of the limiting …
investigate microbial, plant, environmental and mammalian systems. One of the limiting …