Figure 8. Reproducibility of yeast identifications among instruments.

In this analysis, the identifications from each replicate are compared to the identifications of replicates from other instruments of the same type in the same study to determine the overlap in identifications. For example “S6-LTQ” shows the overlaps between pairs of RAW files from LTQs in Study 6, where each pair was required to come from two different LTQs. Shaded boxes represent peptides, while white boxes represent proteins. Because the Orbitrap at site 86 yielded abnormally low reproducibility in Study 6, the comparisons including this instrument were separated from the other three Orbitraps in this Study.