MSDaPl - Molecular & Cellular Proteomics

Figure 4: Screenshots from the MSDaPl web application interface. (a) A view of the experiment
comparison interface where three experiments are being compared. Each experiment is assigned
a color, which is used consistently throughout the page. The top table and Venn diagram indicate
the degree of overlap between the three experiments. The bottom table shows the results for a
single protein with the optional view of the peptides used to identify the protein and their
presence (including abundance) or absence in each of the experiments. (b) A view of the quality
control interface in MSDaPl. The top graph indicates the total number of PSMs and the
proportion of quality PSMs to total PSMs found as a function of retention time, and the bottom
graph indicates the total number of scans and the proportion of scans with quality matches to
total scans as a function of retention time.
22