Tandem Mass Spectrum Identification via Cascaded Search.

ABSTRACT: Accurate assignment of peptide sequences to observed fragmentation spectra is hindered by the large number of hypotheses that must be considered for each observed spectrum. A high score assigned to a particular peptide-spectrum match (PSM) may not end up being statistically significant after multiple testing correction. Researchers can mitigate this problem by controlling the hypothesis space in various ways: considering only peptides resulting from enzymatic cleavages, ignoring possible post-translational modifications or single nucleotide variants, etc. However, these strategies sacrifice identifications of spectra generated by rarer types of peptides. In this work, we introduce a statistical testing framework, cascade search, that directly addresses this problem. The method requires tha

SUBMITTER: Kertesz-Farkas A 

PROVIDER: S-EPMC4533645 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature