Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices

S Alseekh, A Aharoni, Y Brotman, K Contrepois… - Nature …, 2021 - nature.com
Mass spectrometry-based metabolomics approaches can enable detection and
quantification of many thousands of metabolite features simultaneously. However …

The changing metabolic landscape of bile acids–keys to metabolism and immune regulation

I Mohanty, C Allaband, H Mannochio-Russo… - Nature reviews …, 2024 - nature.com
Bile acids regulate nutrient absorption and mitochondrial function, they establish and
maintain gut microbial community composition and mediate inflammation, and they serve as …

MetaboLights: open data repository for metabolomics

O Yurekten, T Payne, N Tejera… - Nucleic acids …, 2024 - academic.oup.com
MetaboLights is a global database for metabolomics studies including the raw experimental
data and the associated metadata. The database is cross-species and cross-technique and …

Reverse metabolomics for the discovery of chemical structures from humans

EC Gentry, SL Collins, M Panitchpakdi, P Belda-Ferre… - Nature, 2024 - nature.com
Determining the structure and phenotypic context of molecules detected in untargeted
metabolomics experiments remains challenging. Here we present reverse metabolomics as …

Artificial intelligence for natural product drug discovery

MW Mullowney, KR Duncan, SS Elsayed… - Nature Reviews Drug …, 2023 - nature.com
Developments in computational omics technologies have provided new means to access
the hidden diversity of natural products, unearthing new potential for drug discovery. In …

Reproducible molecular networking of untargeted mass spectrometry data using GNPS

AT Aron, EC Gentry, KL McPhail, LF Nothias… - Nature protocols, 2020 - nature.com
Abstract Global Natural Product Social Molecular Networking (GNPS) is an interactive online
small molecule–focused tandem mass spectrometry (MS2) data curation and analysis …

microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data

S Zuffa, R Schmid, A Bauermeister, PW P. Gomes… - Nature …, 2024 - nature.com
Abstract microbeMASST, a taxonomically informed mass spectrometry (MS) search tool,
tackles limited microbial metabolite annotation in untargeted metabolomics experiments …

New software tools, databases, and resources in metabolomics: Updates from 2020

BB Misra - Metabolomics, 2021 - Springer
Background Precision medicine, space exploration, drug discovery to characterization of
dark chemical space of habitats and organisms, metabolomics takes a centre stage in …

The underappreciated diversity of bile acid modifications

I Mohanty, H Mannochio-Russo, JV Schweer… - Cell, 2024 - cell.com
The repertoire of modifications to bile acids and related steroidal lipids by host and microbial
metabolism remains incompletely characterized. To address this knowledge gap, we …

Advances in decomposing complex metabolite mixtures using substructure-and network-based computational metabolomics approaches

MA Beniddir, KB Kang, G Genta-Jouve, F Huber… - Natural product …, 2021 - pubs.rsc.org
Covering: up to the end of 2020 Recently introduced computational metabolome mining
tools have started to positively impact the chemical and biological interpretation of …