Identification and quantitative analysis of peptides in plasma. From CHD cases and controls in eight experiments for (a) beta-2 microglobulin (B2M) and (b) alpha-1-acid glycoprotein 1 (ORM1); and from stroke cases and controls in eight experiments for (c) peptidyl-prolyl isomerase A (PPIA) and (d) insulin-like growth factor binding protein 4 (IGFBP4). Tryptic peptides from the amino terminus (1) to the carboxyl terminus are shown at the top. S, C and G indicate signal peptide, cysteine-containing and glycosylated peptides, respectively. Peptides identified, but which lack cysteine for quantification, are shown in gray. The log2 case/control ratio is shown for cysteine-containing peptides with the number of MS events for that peptide shown in parentheses. The number of plasma fractions where each peptide was quantified is indicated.