Data-independent acquisition (DIA) in liquid chromatography tandem mass spectrometry (LC-MS/MS) provides more comprehensive untargeted acquisition of molecular data. Here we provide an open-source software pipeline, MS-DIAL, to demonstrate how DIA improves simultaneous identification and quantification of small molecules by mass spectral deconvolution. For reversed phase LC-MS/MS, our program with an enriched LipidBlast library identified total 1,023 lipid compounds from nine algal strains to highlight their chemotaxonomic relationships.

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Highlights d Gut microbe formed phenylacetyl glutamine (PAGln) contributes to cardiac disease d Microbial porA and fldH impact host PAGln levels, platelet function, and thrombosis d PAGln transmits cellular responses via the a2A, a2B, and b2 adrenergic receptors d b blocker therapy attenuates PAGln-induced heightened thrombosis risk