Fig. 5

Monitoring of 27 melanoma-associated protein groups in thirty patient samples by DIA or Hybrid-PRM/DIA. A Heatmap of 27 protein groups that were detected and quantified by DIA or by MSxPRM of hybrid-PRM/DIA in 30 melanoma patient samples. Heavy reference peptides were used for triggering and peak integration. All samples were measured in duplicate for each acquisition scheme. Missing data points in DIA are shown in gray, values below the LOD in MSxPRM are shown in white. The four proteins CDK4, PMEL, NF1, and UFO shown in panel B are highlighted in bold. B Four examples illustrating the benefits of MSxPRM measurements in hybrid-PRM/DIA. MSxPRM helped to increase the specificity, reproducibility, and sensitivity of peptide detection. Peptide levels below the limit of detection (LOD) could be unambiguously assigned (target: light endogenous peptide, ref: heavy reference peptide)