Table II. The median peptide signal intensity ratios and q values for each condition was calculated and compared to contrived ratios of 1:0.1 mg, 1:0.3 mg, and 0.3:0.1 mg.

Contrived ratio of protein input	Condition	Median intensity ratio	Median q value
1:0.1 mg (10.00)	LF	11.61	1.3 × 10−2
	TMT-PV	9.46	5.0 × 10−3
	TMT+PV	10.19	3.0 × 10−3
1:0.3 mg (3.33)	LF	4.38	1.3 × 10−2
	TMT-PV	3.96	4.8 × 10−3
	TMT+PV	3.65	8.3 × 10−3
0.3:0.1 mg (3.00)	LF	2.69	1.9 × 10−2
	TMT-PV	2.30	7.6 × 10−2
	TMT+PV	2.66	2.2 × 10−2