Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry
Summary: Nanoflow liquid chromatography-tandem mass spectrometry (nLC-MS) benefits untargeted metabolomics by enhancing sensitivity and integrating proteomics for the same sample. Here, we present a protocol to enable nLC-MS for dual metabolomics and proteomics. We describe steps for solid-phase mic...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-06-01
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| Series: | STAR Protocols |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2666166725001510 |
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| author | Weiwei Lin Fatemeh Mousavi Benjamin C. Blum Christian F. Heckendorf Matthew Lawton Noah Lampl Ryan Hekman Mark McComb Andrew Emili |
| author_facet | Weiwei Lin Fatemeh Mousavi Benjamin C. Blum Christian F. Heckendorf Matthew Lawton Noah Lampl Ryan Hekman Mark McComb Andrew Emili |
| author_sort | Weiwei Lin |
| collection | DOAJ |
| description | Summary: Nanoflow liquid chromatography-tandem mass spectrometry (nLC-MS) benefits untargeted metabolomics by enhancing sensitivity and integrating proteomics for the same sample. Here, we present a protocol to enable nLC-MS for dual metabolomics and proteomics. We describe steps for solid-phase micro-extraction (SPME)-assisted metabolite cleaning and enrichment, which avoids capillary column blockage. We then detail nLC-MS data acquisition and analysis. This protocol has been applied in diverse specimens including biofluids, cell lines, and tissues.For complete details on the use and execution of this protocol, please refer to Lin et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics. |
| format | Article |
| id | doaj-art-7d86af860fbd406dac0a960ed1ca8d01 |
| institution | OA Journals |
| issn | 2666-1667 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | STAR Protocols |
| spelling | doaj-art-7d86af860fbd406dac0a960ed1ca8d012025-08-20T02:26:09ZengElsevierSTAR Protocols2666-16672025-06-016210374510.1016/j.xpro.2025.103745Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometryWeiwei Lin0Fatemeh Mousavi1Benjamin C. Blum2Christian F. Heckendorf3Matthew Lawton4Noah Lampl5Ryan Hekman6Mark McComb7Andrew Emili8Center for Network Systems Biology, Boston University, Boston, MA 02118, USA; Department of Pharmacology, Physiology & Biophysics, Boston University Chobanian & Avedisian School of Medicine, Boston, MA 02118, USA; Corresponding authorCenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USACenter for Network Systems Biology, Boston University, Boston, MA 02118, USA; Department of Biology, Boston University, Boston, MA 02118, USA; Corresponding authorSummary: Nanoflow liquid chromatography-tandem mass spectrometry (nLC-MS) benefits untargeted metabolomics by enhancing sensitivity and integrating proteomics for the same sample. Here, we present a protocol to enable nLC-MS for dual metabolomics and proteomics. We describe steps for solid-phase micro-extraction (SPME)-assisted metabolite cleaning and enrichment, which avoids capillary column blockage. We then detail nLC-MS data acquisition and analysis. This protocol has been applied in diverse specimens including biofluids, cell lines, and tissues.For complete details on the use and execution of this protocol, please refer to Lin et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.http://www.sciencedirect.com/science/article/pii/S2666166725001510BioinformaticsMass SpectrometryMetabolomicsProteomicsSystems biology |
| spellingShingle | Weiwei Lin Fatemeh Mousavi Benjamin C. Blum Christian F. Heckendorf Matthew Lawton Noah Lampl Ryan Hekman Mark McComb Andrew Emili Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry STAR Protocols Bioinformatics Mass Spectrometry Metabolomics Proteomics Systems biology |
| title | Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry |
| title_full | Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry |
| title_fullStr | Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry |
| title_full_unstemmed | Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry |
| title_short | Protocol for dual metabolomics and proteomics using nanoflow liquid chromatography-tandem mass spectrometry |
| title_sort | protocol for dual metabolomics and proteomics using nanoflow liquid chromatography tandem mass spectrometry |
| topic | Bioinformatics Mass Spectrometry Metabolomics Proteomics Systems biology |
| url | http://www.sciencedirect.com/science/article/pii/S2666166725001510 |
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