March 8, 2023, 15:00 - 15:30
A critical and time-consuming part of -omics projects is the analysis of the raw data generated in experiments. This should ideally be standardized, robust, and as automated as possible to save time and human resources. For this purpose, two examples are presented. One is xMAPr a workflow/pipeline for immunoproteomics and SpectR a post Spectronaut DIA-MS analysis pipeline.
The xMAPr immunoproteomics workflow includes an experimental protocol with a serial dilution step approach for the collection of raw immunoproteomics data and an app for the analysis of these raw data with a collection of different visualization options that also enable effective troubleshooting and data quality assessment. This dilution step approach allows accurate determination of immunological response to specific antigens over a very broad dynamic range, which is essential for precise determining antibody levels.
SpectR is a nearly fully automated DIA-MS Spectronaut downstream-centric R package that provides ID rate summary, ON/OFF analysis, normalization, multivariate analysis, statistical analysis, and html report generation. This tool enables our group to perform many data analyses per day and, in the core facility, to the fast delivery of detailed reports to collaborators in any easily comprehensible manner.