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“The authors demonstrated an example of a metabolite differentially expressed within two cohorts of mice and utilized MASST to reveal that this metabolite is also differentially expressed in healthy and non-alcoholic fatty liver disease in humans – even without knowing the molecule's chemical structure.”
From Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products (2024) · cites this paper as [155]
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“The Mass Spectrometry Search Tool (MASST)155 can be utilized to add context to molecules detected in a bioactivity experiment.”
From Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products (2024) · cites this paper as [155]
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“The MASST tool finds all occurrences of a query MS/MS spectrum across all public metabolomics experiments.”
From Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products (2024) · cites this paper as [155]
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“The enzymes responsible for these conjugation reactions are unknown.”
From Bile Acids Are Substrates for Amine N-Acyl Transferase Activity by Bile Salt Hydrolase (2022) · cites this paper as [17]
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“Recent studies demonstrated that bacteria, in addition to the host, have bile acid amine N-acyltransferase activity, with dozens of bacterially conjugated amino acid amidates identified1–4,6,17.”
From Bile Acids Are Substrates for Amine N-Acyl Transferase Activity by Bile Salt Hydrolase (2022) · cites this paper as [17]
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“All MCBAs were purified according to literature precedent and characterization data are consistent with reported data31,33,42,77,78.”
From Bile salt hydrolases shape the bile acid landscape and restrict Clostridioides difficile growth in the murine gut (2023) · cites this paper as [42]
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Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
Bolyen, E., Rideout, J. R., Dillon, M. R., Bokulich, N. A., Abnet, C. C., Al-Ghalith, G. A., Alexander, H., Alm, E. J., Arumugam, M., Asnicar, F., et al. (2019) · Nature Biotechnology · doi:10.1038/s41587-019-0209-9 · Cited by 23,742
Self-citationSumner, L. W., Amberg, A., Barrett, D., Beale, M. H., Beger, R., Daykin, C. A., Fan, T. W.-M., Fiehn, O., Goodacre, R., Griffin, J. L., et al. (2007) · Metabolomics · doi:10.1007/s11306-007-0082-2 · Cited by 5,368
Wang, M., Carver, J. J., Phelan, V. V., Sanchez, L. M., Garg, N., Peng, Y., Nguyen, D. D., Watrous, J., Kapono, C. A., Luzzatto-Knaan, T., et al. (2016) · Nature Biotechnology · doi:10.1038/nbt.3597 · Cited by 4,629
Self-citationMetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis
Chong, J., Soufan, O., Li, C., Caraus, I., Li, S., Bourque, G., Wishart, D. S., & Xia, J. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky310 · Cited by 3,637
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MassBank: a public repository for sharing mass spectral data for life sciences
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Self-citationBile acids and the gut microbiota: metabolic interactions and impacts on disease
Collins, S. L., Stine, J. G., Bisanz, J. E., Okafor, C. D., & Patterson, A. D. (2023) · Nature Reviews Microbiology · doi:10.1038/s41579-022-00805-x · Cited by 1,214
Reproducible molecular networking of untargeted mass spectrometry data using GNPS
Aron, A. T., Gentry, E. C., McPhail, K. L., Nothias-Scaglia, L.-F., Nothias-Esposito, M., Bouslimani, A., Petras, D., Gauglitz, J. M., Sikora, N. C., Vargas, F., et al. (2020) · Nature Protocols · doi:10.1038/s41596-020-0317-5 · Cited by 766
Self-citationGlobal chemical effects of the microbiome include new bile-acid conjugations
Quinn, R. A., Melnik, A. V., Vrbanac, A., Fu, T., Patras, K. A., Christy, M. P., Bodai, Z., Belda-Ferre, P., Tripathi, A., Chung, L. K., et al. (2020) · Nature · doi:10.1038/s41586-020-2047-9 · Cited by 579
Self-citationMass spectrometry-based metabolomics in microbiome investigations
Bauermeister, A., Mannochio-Russo, H., Costa-Lotufo, L. V., Jarmusch, A. K., & Dorrestein, P. C. (2021) · Nature Reviews Microbiology · doi:10.1038/s41579-021-00621-9 · Cited by 554
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Metadata
- Authors
- Wang, M., Jarmusch, A. K., Vargas, F., Aksenov, A. A., Gauglitz, J. M., Weldon, K., Petras, D., da Silva, R., Quinn, R., Melnik, A. V., van der Hooft, J. J. J., Caraballo-Rodríguez, A. M., Nothias, L. F., Aceves, C. M., Panitchpakdi, M., Brown, E., Di Ottavio, F., Sikora, N., Elijah, E. O., Labarta-Bajo, L., Gentry, E. C., Shalapour, S., Kyle, K. E., Puckett, S. P., Watrous, J. D., Carpenter, C. S., Bouslimani, A., Ernst, M., Swafford, A. D., Zúñiga, E. I., Balunas, M. J., Klassen, J. L., Loomba, R., Knight, R., Bandeira, N., & Dorrestein, P. C.
- Affiliations
- University of California San Diego (US)
- University of Connecticut (US)
- Corresponding author
- Dorrestein, Pieter C.
- ORCID
- Wang, Mingxun
- Jarmusch, Alan K.
- Vargas, Fernando
- Aksenov, Alexander A.
- Gauglitz, Julia M.
- Weldon, Kelly
- Petras, Daniel
- Quinn, Robert
- Melnik, Alexey V.
- van der Hooft, Justin J. J.
- Caraballo-Rodríguez, Andrés Mauricio
- Aceves, Christine M.
- Panitchpakdi, Morgan
- Brown, Elizabeth
- Sikora, Nicole
- Labarta-Bajo, Lara
- Gentry, Emily C.
- Shalapour, Shabnam
- Kyle, Kathleen E.
- Puckett, Sara P.
- Watrous, Jeramie D.
- Carpenter, Carolina S.
- Bouslimani, Amina
- Ernst, Madeleine
- Swafford, Austin D.
- Zúñiga, Elina I.
- Balunas, Marcy J.
- Klassen, Jonathan L.
- Loomba, Rohit
- Knight, Rob
- Bandeira, Nuno
- Dorrestein, Pieter C.
- Venue
- Nature Biotechnology
- Published
- 2020-01
- Volume
- 38
- Issue
- 1
- Pages
- 23-26
- ISSN
- 0733-222X (ISSN-L)
- 1087-0156
- 1546-1696
- PMC
- PMC7236533
- OpenAlex
- W2997345427
- Cited by
- 281
- References
- 26
- Citations by year
- 2026: 40 · 2025: 45 · 2024: 57 · 2023: 43 · 2022: 27 · 2021: 39 · 2020: 29
- FWCI
- 11.19
- Type
- journal article
- Language
- en
- Open access
- green
- research.wur.nl
- Licence
- public-domain
- www.springer.com/tdm (tdm)
- www.springer.com/tdm (vor)
- Locations
- Nature Biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Socio-Environmental Systems Modeling (acceptedVersion, public-domain)
- PubMed Central (acceptedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- Funders
- Netherlands eScience Center ASDI eScience grant
- Gordon and Betty Moore Foundation (GBMF7622)
- Alfred P. Sloan Foundation (N/A)
- U.S. Department of Health & Human Services | National Institutes of Health (CA211211, P41 GM103484)
- United States Department of Defense | United States Navy | Office of Naval Research (N00014-15-1-2809)
- United States Department of Justice | National Institute of Justice (2015-DN-BX-K047)
- National Science Foundation (IOS-1656475)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Metabolomics and Mass Spectrometry Studies
- Physical Sciences › Chemistry › Spectroscopy › Mass Spectrometry Techniques and Applications
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Keywords
- spectral library search, metabolite annotation, unknown metabolites, cold pressor test, multi-omics, metabolic networks, medicinal plants, traditional East Asian medicine
- MeSH terms
- Algorithms, Mass Spectrometry, Reproducibility of Results, Knowledge Bases, Search Engine
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