In my week on a beta version of an Orbi Fusion, I got to run a few different data sets. One big question was about how the Fusion would do with iTRAQ samples. In order to test this, some friends provided an iTRAQ control data set that they used on their Orbi Velos. The samples were highly fractionated depleted plasma samples. I attempted to replicate their chromatography settings and only used MS/MS (HCD high: high) , rather than the more sophisticated functions available on the Fusion, such as sequential MS3.
These are the results from 1 representative fraction:
Velos: 87 protein groups ~ 63% quantifiable
Fusion: 147 protein groups ~98% quantifiable
The big advantage the Fusion has here over the Orbi Velos is the cycle time at high resolution. Depending on the resolution that you are looking at, the Fusion can be as much as 4 times faster than the Orbi Velos operating in high-high mode.
As always with these advances, we could always compensate by increasing the fractionation, optimizing the chromatography material and gradient, but for results/unit time, the Fusion does represent a substantial increase over the Orbi Velos.
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