Multispecies Benchmark Analysis for LC-MS/MS Validation and Performance Evaluation in Bottom-Up Proteomics
Tobias Jumel, Andrej Shevchenko
Abstract
High Resolution Image Download MS PowerPoint Slide We present an instrument-independent benchmark procedure and software (LFQ_bout) for the validation and comparative evaluation of the performance of LC-MS/MS and data processing workflows in bottom-up proteomics. The procedure enables a back-to-back comparison of common and emerging workflows, e.g ., diaPASEF or ScanningSWATH, and evaluates the impact of arbitrary and inadequately documented settings or black-box data processing algorithms. It enhances the overall performance and quantification accuracy by recognizing and reporting common quantification errors.
Topics & Concepts
Benchmark (surveying)WorkflowComputer scienceSoftwareProteomicsData miningBlack boxArtificial intelligenceDatabaseBiologyProgramming languageGeodesyBiochemistryGeographyGeneAdvanced Proteomics Techniques and ApplicationsMetabolomics and Mass Spectrometry StudiesAdvanced Biosensing Techniques and Applications