Accounting for longitudinal peak quality metrics with MSstats+ enhances differential analysis in proteomic experiments with data-independent acquisition
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Key Points
The MSstats+ method improves the detection of differentially abundant proteins in proteomic experiments.
It uses peak intensities and quality metrics—like peak shape and retention time—to refine analyses.
The method also effectively addresses missing values by weighting imputed values based on quality metrics.
MSstats+ was validated through four experiments, confirming its effectiveness in differential analysis.
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Implication
MSstats+ enhances differential analysis by incorporating quality metrics and longitudinal peak data.