Using ion mobility data to improve peptide identification: intrinsic amino acid size parameters.

ABSTRACT: A new method for enhancing peptide ion identification in proteomics analyses using ion mobility data is presented. Ideally, direct comparisons of experimental drift times (t(D)) with a standard mobility database could be used to rank candidate peptide sequence assignments. Such a database would represent only a fraction of sequences in protein databases and significant difficulties associated with the verification of data for constituent peptide ions would exist. A method that employs intrinsic amino acid size parameters to obtain ion mobility predictions that can be used to rank candidate peptide ion assignments is proposed. Intrinsic amino acid size parameters have been determined for doubly charged peptide ions from an annotated yeast proteome. Predictions of ion mobilities using the in

SUBMITTER: Valentine SJ 

PROVIDER: S-EPMC3138335 | biostudies-literature | 2011 May

REPOSITORIES: biostudies-literature