U.S. Department of Energy

Pacific Northwest National Laboratory

Accounting for population variation in targeted proteomics.

TitleAccounting for population variation in targeted proteomics.
Publication TypeJournal Article
Year of Publication2014
AuthorsFujimoto GM, Monroe ME, Rodriguez L, Wu C, Maclean B, Smith RD, Maccoss MJ, Payne SH
JournalJ Proteome Res

Individual proteomes typically differ from the reference human proteome at ∼10 000 single amino acid variants. When viewed on the population scale, this individual variation results in a wide variety of protein sequences. In targeted proteomics experiments, such variability can confound accurate protein quantification. To assist researchers in identifying target peptides with high variability within the human population, we have created the Population Variation plug-in for Skyline, which provides easy access to the polymorphisms stored in dbSNP. Given a set of peptides, the tool reports minor allele frequency for common polymorphisms. We highlight the importance of considering genetic variation by applying the tool to public data sets.

PubMed ID24320210
Area of Research: 
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