Table 1. Comparison of the number of proteins identified and the number of protein ratios of >1.5 in representative experiments.

Exp	L/H*	Conditions	#Proteins	#Ratios >1.5
1A	>1	(Heavy+Control Bead)+(Light+3286 Bead)	400	141
1B	<1	(Light+Control Bead)+(Heavy+3286 Bead)	580	162
1C	>1	(Heavy+50 uM HE3286+3286 Bead)+(Light+3286 Bead)	369	8
1D	= 1	(Heavy+50 uM HE3235+3286 Bead)+(Light+3286 Bead)	698	131
2A	>1	(Heavy+Control Bead)+(Light+3286 Bead)	878	372
2B	<1	(Light+Control Bead)+(Heavy+3286 Bead)	919	429
2C	>1	(Heavy+50 uM HE3286+3286 Bead)+(Light+3286 Bead)	942	157

*L/H: (light isotope label/heavy isotope label) expresses the expected outcome ratio for each set of conditions.