Evaluating False Transfer Rates from the Match-between-Runs Algorithm with a Two-Proteome Model.

ABSTRACT: Stochasticity between independent LC-MS/MS runs is a challenging problem in the field of proteomics, resulting in significant missing values (i.e., abundance measurements) among observed peptides. To address this issue, several approaches have been developed including computational methods such as MaxQuant's match-between-runs (MBR) algorithm. Often dozens of runs are all considered at once by MBR, transferring identifications from any one run to any of the others. To evaluate the error associated with these transfer events, we created a two-sample/two-proteome approach. In this way, samples containing no yeast lysate (n = 20) were assessed for false identification transfers from samples containing yeast (n = 20). While MBR increased the total number of spectral identificatio

SUBMITTER: Lim MY 

PROVIDER: S-EPMC7346880 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature