Table 3.

TMT labelling test for FASP and SDC-FASP protocols

Protocols	Peptides	Proteins	Labelled peptides	Labelling efficiency (%)	Correlation (r)a
					R1/R2	R1/R3	R2/R3
FASP	4157	1259	4153	99.9	0.988	0.997	0.986
SDC-FASP	4683	1280	4679	99.9	0.997	0.999	0.999

For each protocol, three replicates of peptides labelled with TMT tags were combined into one sample and then subjected for LC–MS analysis. Peptides labelled with TMT tag were separated using a 60 min LC gradient

^aCorrelation between replicates were calculated from the quantified PSM abundance and expressed as r value; R1, R2 and R3 were three replicates of each protocol