Standardization of tryptic digestion protocols on blood plasma works well for high abundance apolipoproteins, but different surfactants and the time allowed for digestion is somewhat a multifactorial problem with different optimum conditions for the proteins. We figured out the conditions necessary for apolipoprotein A-I and B.
Agger SA, Marney LC, Hoofnagle AN.
Clin Chem. 2010 Dec;56(12):1804-13. doi: 10.1373/clinchem.2010.152264. Epub 2010 Oct 5.