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Article
Open AccessA conserved interdomain microbial network underpins cadaver decomposition despite environmental variables
Microbial breakdown of organic matter is one of the most important processes on Earth, yet the controls of decomposition are poorly understood. Here we track 36 terrestrial human cadavers in three locations an...
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Article
Open AccessOpen access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics
Despite the increasing availability of tandem mass spectrometry (MS/MS) community spectral libraries for untargeted metabolomics over the past decade, the majority of acquired MS/MS spectra remain uninterprete...
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Article
Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation
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Article
Open AccessPlasma metabolites with mechanistic and clinical links to the neurovascular disease cavernous angioma
Cavernous angiomas (CAs) affect 0.5% of the population, predisposing to serious neurologic sequelae from brain bleeding. A leaky gut epithelium associated with a permissive gut microbiome, was identified in pa...
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Article
Enhancing untargeted metabolomics using metadata-based source annotation
Human untargeted metabolomics studies annotate only ~10% of molecular features. We introduce reference-data-driven analysis to match metabolomics tandem mass spectrometry (MS/MS) data against metadata-annotate...
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Article
Open AccessThe impact of maternal asthma on the preterm infants' gut metabolome and microbiome (MAP study)
Preterm infants are at a greater risk for the development of asthma and atopic disease, which can lead to lifelong negative health consequences. This may be due, in part, to alterations that occur in the gut m...
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Article
Open AccessIon identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment
Molecular networking connects mass spectra of molecules based on the similarity of their fragmentation patterns. However, during ionization, molecules commonly form multiple ion species with different fragment...
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Article
Open AccessA community resource for paired genomic and metabolomic data mining
Genomics and metabolomics are widely used to explore specialized metabolite diversity. The Paired Omics Data Platform is a community initiative to systematically document links between metabolome and (meta)gen...
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Article
ReDU: a framework to find and reanalyze public mass spectrometry data
We present ReDU (https://redu.ucsd.edu/), a system for metadata capture of public mass spectrometry-based metabolomics data, with validated controlled vocabularies...
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Article
Feature-based molecular networking in the GNPS analysis environment
Molecular networking has become a key method to visualize and annotate the chemical space in non-targeted mass spectrometry data. We present feature-based molecular networking (FBMN) as an analysis method in t...
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Article
Reproducible molecular networking of untargeted mass spectrometry data using GNPS
Global Natural Product Social Molecular Networking (GNPS) is an interactive online small molecule–focused tandem mass spectrometry (MS2) data curation and analysis infrastructure. It is intended to provide as muc...
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Article
Global chemical effects of the microbiome include new bile-acid conjugations
A mosaic of cross-phylum chemical interactions occurs between all metazoans and their microbiomes. A number of molecular families that are known to be produced by the microbiome have a marked effect on the bal...
