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. Author manuscript; available in PMC: 2008 Sep 17.
Published in final edited form as: Anal Chem. 2007 Apr 6;79(10):3623–3634. doi: 10.1021/ac062292d

Figure 3. Improved peptide (A) and protein (B) identifications in 13-step MudPIT – the effect of ACE mixed-beds on two-dimensional (2D) LC/MS/MS strategy.

Figure 3

0.5-μg of yeast tryptic digests were analyzed by 13-step MudPIT runs for each ion-exchange resin combination (N=4). Peptide/protein identification criteria were: (1) at least 2 peptides identification per protein, (2) peptides must be half- or fully-tryptic, and (3) filtering criteria must result in false positive rates at less than 2% at the protein level as estimated by a decoy reversed-database approach. The ACE mixed-beds are denoted as WAX+SCX(A:B), where WAX and SCX resins were mixed with A:B weight ratios and used as columns for the first-dimension separation. WAX/SCX and SCX/WAX are tandem bed configurations by the packing order of “upstream/downstream” (2.5 cm each in length).