Table 3.

Comparison of LC-MS and DMS-MS shows a factor of 7.5–30 increase in throughput using SPE-DMS-MS, with SCX-SPE assumed to be performed in batch mode. UPLC and nanoLC timings include time for two blank runs. DMS-MS timing is for our prototype system and includes 10 s to generate a stable ESI signal; 6 s data acquisition per marker, 42 s in total; 60 s for cleaning the sample transfer line. The sample preparation timing in this table is based on a batch of approximately 20 samples of the type used in this study.

Analysis platform	LC-MS	DMS-MS
Sample preparation	Protein precipitation. 15–25 min for all samples	Solid phase extraction (SPE) 1–2 hrs for all samples
Sample volume for single analysis	100 μL	40 μL
Detection on mass spec/sample	UPLC: 15–30 min [3] NanoLC: 60 min [27]	~2 min
Daily throughput on mass spec/day (24 hrs)	UPLC: 48–96 samples NanoLC: 24 samples	~720 samples