. Author manuscript; available in PMC: 2007 Jan 25.

Published in final edited form as: J Proteome Res. 2005;4(6):2397–2403. doi: 10.1021/pr050160f

Table 2.

The quantities of recovered peptides^a and the numbers of different peptides and proteins identified^b by LC-MS/MS from ∼1 million MCF-7 cells prepared by two different lysis protocols.

		Recovered peptide (μg)	Different peptides identified	Proteins identified
	1		439	242
SDS method	2	122	282	159
	3		467	242
Combined			694	332

	1		443	247
TFE method	2	125	491	268
	3		436	237

Combined			755	378
Overlap			369	228

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

All peptides identified passed the filtering criteria discussed in detail in the experimental section.