Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications
Abstract Background Metabolomics, a burgeoning field within systems biology, focuses on the comprehensive study of small molecules present in biological systems. Mass spectrometry (MS) has emerged as a powerful tool for metabolomic analysis due to its high sensitivity, resolution, and ability to cha...
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| Format: | Article |
| Language: | English |
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BMC
2025-05-01
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| Series: | Proteome Science |
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| Online Access: | https://doi.org/10.1186/s12953-025-00241-8 |
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| author | Kosar Hajnajafi Mohammad Askandar Iqbal |
| author_facet | Kosar Hajnajafi Mohammad Askandar Iqbal |
| author_sort | Kosar Hajnajafi |
| collection | DOAJ |
| description | Abstract Background Metabolomics, a burgeoning field within systems biology, focuses on the comprehensive study of small molecules present in biological systems. Mass spectrometry (MS) has emerged as a powerful tool for metabolomic analysis due to its high sensitivity, resolution, and ability to characterize a wide range of metabolites thus offering deep insights into the metabolic profiles of living systems. Aim of review This review provides an overview of the methodologies, workflows, strategies, data analysis techniques, and applications associated with mass spectrometry-based metabolomics. Key scientific concepts of review We discuss workflows, key strategies, experimental procedures, data analysis techniques, and diverse applications of metabolomics in various research domains. Nuances of sample preparation, metabolite extraction, separation using chromatographic techniques, mass spectrometry analysis, and data processing are elaborated. Moreover, standards, quality controls, metabolite annotation, software for statistical and pathway analysis are also covered. In conclusion, this review aims to facilitate the understanding and adoption of mass spectrometry-based metabolomics by newcomers and researchers alike by providing a foundational understanding and insights into the current state and future directions of this dynamic field. |
| format | Article |
| id | doaj-art-d7dbe3293c7b4bb0806c20aa754022a7 |
| institution | OA Journals |
| issn | 1477-5956 |
| language | English |
| publishDate | 2025-05-01 |
| publisher | BMC |
| record_format | Article |
| series | Proteome Science |
| spelling | doaj-art-d7dbe3293c7b4bb0806c20aa754022a72025-08-20T01:59:57ZengBMCProteome Science1477-59562025-05-0123111510.1186/s12953-025-00241-8Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applicationsKosar Hajnajafi0Mohammad Askandar Iqbal1Thumbay Research Institute for Precision Medicine, Gulf Medical UniversityThumbay Research Institute for Precision Medicine, Gulf Medical UniversityAbstract Background Metabolomics, a burgeoning field within systems biology, focuses on the comprehensive study of small molecules present in biological systems. Mass spectrometry (MS) has emerged as a powerful tool for metabolomic analysis due to its high sensitivity, resolution, and ability to characterize a wide range of metabolites thus offering deep insights into the metabolic profiles of living systems. Aim of review This review provides an overview of the methodologies, workflows, strategies, data analysis techniques, and applications associated with mass spectrometry-based metabolomics. Key scientific concepts of review We discuss workflows, key strategies, experimental procedures, data analysis techniques, and diverse applications of metabolomics in various research domains. Nuances of sample preparation, metabolite extraction, separation using chromatographic techniques, mass spectrometry analysis, and data processing are elaborated. Moreover, standards, quality controls, metabolite annotation, software for statistical and pathway analysis are also covered. In conclusion, this review aims to facilitate the understanding and adoption of mass spectrometry-based metabolomics by newcomers and researchers alike by providing a foundational understanding and insights into the current state and future directions of this dynamic field.https://doi.org/10.1186/s12953-025-00241-8MetabolomicsMass spectrometryLC–MSMetabolitesMetabolic fingerprintingAnalytes |
| spellingShingle | Kosar Hajnajafi Mohammad Askandar Iqbal Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications Proteome Science Metabolomics Mass spectrometry LC–MS Metabolites Metabolic fingerprinting Analytes |
| title | Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications |
| title_full | Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications |
| title_fullStr | Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications |
| title_full_unstemmed | Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications |
| title_short | Mass-spectrometry based metabolomics: an overview of workflows, strategies, data analysis and applications |
| title_sort | mass spectrometry based metabolomics an overview of workflows strategies data analysis and applications |
| topic | Metabolomics Mass spectrometry LC–MS Metabolites Metabolic fingerprinting Analytes |
| url | https://doi.org/10.1186/s12953-025-00241-8 |
| work_keys_str_mv | AT kosarhajnajafi massspectrometrybasedmetabolomicsanoverviewofworkflowsstrategiesdataanalysisandapplications AT mohammadaskandariqbal massspectrometrybasedmetabolomicsanoverviewofworkflowsstrategiesdataanalysisandapplications |