Extended Data Fig. 5: Benchmarking library based search in a complex background.
From: AlphaDIA enables DIA transfer learning for feature-free proteomics
a, Experimental setup as described by Lou et al.33 Mouse brain isolate digests were spiked into a complex yeast proteome background in different ratios and measured in five technical replicates. b, Protein groups identified at 1% FDR on the Bruker timsTOF. c, Protein groups identified at 1% FDR on the Thermo Fisher QE-HF. d, Unique modified peptides identified 1% FDR across replicates on the Bruker timsTOF. e, Unique modified peptides identified 1% FDR across replicates on the Thermo Fisher QE-HF.
