SIRIUS 4: A Rapid Tool For Turning Tandem Mass Spectra ... - PubMed
The .gov means it’s official. Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.
The site is secure. The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.
Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation Search: Search Advanced Clipboard Save Email Send to- Clipboard
- My Bibliography
- Collections
- Citation manager
Save citation to file
Format: Summary (text) PubMed PMID Abstract (text) CSV Create file CancelEmail citation
Subject: 1 selected item: 30886413 - PubMed To: From: Format: Summary Summary (text) Abstract Abstract (text) MeSH and other data Send email CancelAdd to Collections
- Create a new collection
- Add to an existing collection
Add to My Bibliography
- My Bibliography
Your saved search
Name of saved search: Search terms: Test search terms Would you like email updates of new search results? Saved Search Alert Radio Buttons- Yes
- No
Create a file for external citation management software
Create file CancelYour RSS Feed
Name of RSS Feed: Number of items displayed: 5 10 15 20 50 100 Create RSS Cancel RSS Link CopyFull text links
Nature Publishing Group Full text linksActions
CiteCollectionsAdd to Collections- Create a new collection
- Add to an existing collection
Share
- Permalink Copy
Page navigation
- Title & authors
- Abstract
- Similar articles
- Cited by
- Publication types
- MeSH terms
- Substances
- LinkOut - more resources
Abstract
Mass spectrometry is a predominant experimental technique in metabolomics and related fields, but metabolite structural elucidation remains highly challenging. We report SIRIUS 4 (https://bio.informatik.uni-jena.de/sirius/), which provides a fast computational approach for molecular structure identification. SIRIUS 4 integrates CSI:FingerID for searching in molecular structure databases. Using SIRIUS 4, we achieved identification rates of more than 70% on challenging metabolomics datasets.
PubMed Disclaimer
Similar articles
- De Novo Molecular Formula Annotation and Structure Elucidation Using SIRIUS 4. Ludwig M, Fleischauer M, Dührkop K, Hoffmann MA, Böcker S. Ludwig M, et al. Methods Mol Biol. 2020;2104:185-207. doi: 10.1007/978-1-0716-0239-3_11. Methods Mol Biol. 2020. PMID: 31953819 Review.
- Bayesian networks for mass spectrometric metabolite identification via molecular fingerprints. Ludwig M, Dührkop K, Böcker S. Ludwig M, et al. Bioinformatics. 2018 Jul 1;34(13):i333-i340. doi: 10.1093/bioinformatics/bty245. Bioinformatics. 2018. PMID: 29949965 Free PMC article.
- Overview of Tandem Mass Spectral and Metabolite Databases for Metabolite Identification in Metabolomics. Yi Z, Zhu ZJ. Yi Z, et al. Methods Mol Biol. 2020;2104:139-148. doi: 10.1007/978-1-0716-0239-3_8. Methods Mol Biol. 2020. PMID: 31953816
- Deep kernel learning improves molecular fingerprint prediction from tandem mass spectra. Dührkop K. Dührkop K. Bioinformatics. 2022 Jun 24;38(Suppl 1):i342-i349. doi: 10.1093/bioinformatics/btac260. Bioinformatics. 2022. PMID: 35758813 Free PMC article.
- Translational Metabolomics of Head Injury: Exploring Dysfunctional Cerebral Metabolism with Ex Vivo NMR Spectroscopy-Based Metabolite Quantification. Wolahan SM, Hirt D, Glenn TC. Wolahan SM, et al. In: Kobeissy FH, editor. Brain Neurotrauma: Molecular, Neuropsychological, and Rehabilitation Aspects. Boca Raton (FL): CRC Press/Taylor & Francis; 2015. Chapter 25. In: Kobeissy FH, editor. Brain Neurotrauma: Molecular, Neuropsychological, and Rehabilitation Aspects. Boca Raton (FL): CRC Press/Taylor & Francis; 2015. Chapter 25. PMID: 26269925 Free Books & Documents. Review.
Cited by
- Effect-directed analysis of genotoxicants in food packaging based on HPTLC fractionation, bioassays, and toxicity prediction with machine learning. Bergmann AJ, Arturi K, Schönborn A, Hollender J, Vermeirssen ELM. Bergmann AJ, et al. Anal Bioanal Chem. 2024 Nov 23. doi: 10.1007/s00216-024-05632-y. Online ahead of print. Anal Bioanal Chem. 2024. PMID: 39578259
- A metabologenomics strategy for rapid discovery of polyketides derived from modular polyketide synthases. Liu RZ, Zhang Z, Li M, Zhang L. Liu RZ, et al. Chem Sci. 2024 Nov 4. doi: 10.1039/d4sc04174g. Online ahead of print. Chem Sci. 2024. PMID: 39568943 Free PMC article.
- Data Processing of Product Ion Spectra: Methods to Control False Discovery Rate in Compound Search Results for Untargeted Metabolomics. Matsuda F. Matsuda F. Mass Spectrom (Tokyo). 2024;13(1):A0155. doi: 10.5702/massspectrometry.A0155. Epub 2024 Nov 12. Mass Spectrom (Tokyo). 2024. PMID: 39555379 Free PMC article.
- Longitudinal analyses of infants' microbiome and metabolome reveal microbes and metabolites with seemingly coordinated dynamics. Wu H, Guzior DV, Martin C, Neugebauer KA, Rzepka MM, Lumeng JC, Quinn RA, de Los Campos G. Wu H, et al. Commun Biol. 2024 Nov 14;7(1):1506. doi: 10.1038/s42003-024-07015-6. Commun Biol. 2024. PMID: 39543263 Free PMC article.
- A complementary approach for detecting biological signals through a semi-automated feature selection tool. Arini GS, Mencucini LGS, de Felício R, Feitosa LGP, Rezende-Teixeira P, de Oliveira Tsuji HMY, Pilon AC, Pinho DR, Costa Lotufo LV, Lopes NP, Trivella DBB, da Silva RR. Arini GS, et al. Front Chem. 2024 Oct 25;12:1477492. doi: 10.3389/fchem.2024.1477492. eCollection 2024. Front Chem. 2024. PMID: 39525959 Free PMC article.
Publication types
- Research Support, Non-U.S. Gov't Actions
- Search in PubMed
- Search in MeSH
- Add to Search
MeSH terms
- Algorithms Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Bayes Theorem Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Biomarkers Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Cluster Analysis Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Computational Biology / methods Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Computer Graphics Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Databases, Factual Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Electronic Data Processing Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Internet Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Isotopes Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Likelihood Functions Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Metabolome Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Metabolomics / methods* Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Molecular Structure* Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Neural Networks, Computer Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Programming Languages Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Signal Processing, Computer-Assisted* Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Tandem Mass Spectrometry / methods* Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- User-Computer Interface Actions
- Search in PubMed
- Search in MeSH
- Add to Search
Substances
- Biomarkers Actions
- Search in PubMed
- Search in MeSH
- Add to Search
- Isotopes Actions
- Search in PubMed
- Search in MeSH
- Add to Search
LinkOut - more resources
Full Text Sources
- Nature Publishing Group
- Clipboard
- Save
- My Bibliography
- Collections
- Citation Manager
NCBI Literature Resources
MeSH PMC Bookshelf Disclaimer
The PubMed wordmark and PubMed logo are registered trademarks of the U.S. Department of Health and Human Services (HHS). Unauthorized use of these marks is strictly prohibited.