Table 1.

The quantities of recovered peptides^a and the numbers of different peptides and proteins identified^b by LC-MS/MS from 4.5-5.0 mg of mouse brain tissue prepared by two different lysis protocols.

		Tissue amount (mg)	Recovered peptide (μg)	Different peptides Identified	Proteins Identified
	1	4.6	261	644	303
CHAPS method	2	4.7	257	579	241
	3	4.7	215	495	226
Combinedc				1009	399
	1	4.7	181	724	319
TFE method	2	4.8	315	787	322
	3	4.6	196	768	329
Combined				1286	491
Overlapd				604	297

^aPeptides were resuspended in 100 μL of 50 mM NH₄HCO₃ and their concentrations were measured using BCA protein assay.

^bAll peptides identified passed the filtering criteria described in the experimental section.

^cTotal number of different peptides and proteins combined from three datasets obtained from the same protocol.

^dThe number of peptides and proteins observed in samples prepared using both protocols.