Robust optimization of SWATH-MS workflow for human blood serum proteome analysis using a quality by design approach.

ABSTRACT:

Background

It is not enough to optimize proteomics assays. It is critical those assays are robust to operating conditions. Without robust assays, proteomic biomarkers are unlikely to translate readily into the clinic. This study outlines a structured approach to the identification of a robust operating window for proteomics assays and applies that method to Sequential Window Acquisition of all Theoretical Spectra Mass Spectroscopy (SWATH-MS).

Methods

We used a sequential quality by design approach exploiting a fractional screening design to first identify critical SWATH-MS parameters, then using response surface methods to identify a robust operating window with good reproducibility, before validating those settings in a separate validation study.

Results

The screenin

SUBMITTER: Serrano-Blesa E 

PROVIDER: S-EPMC8359389 | biostudies-literature | 2021 Aug

REPOSITORIES: biostudies-literature