Are you sure you want to completely delete Population Variation?
Are you sure you want to delete Population Variation version 2.0.0?
In the context of clinical or population studies using targeted proteomics (MRM/SRM), a peptide with a high natural variation is problematic. Subjects with the minor allele have a different amino acid sequence. Therefore, the targeted approach of MRM/SRM which isolates a specific m/z would register a null or noise value for the peptide target, confounding downstream analysis.
The Population Variation plug-in for Skyline presents the variant data from dbSNP and the 1000 Genome project for mutations with a calculated minor allele frequency. Three kinds of mutations that alter protein coding sequences are reported: non-synonymous variants that change a single amino acid, and frame-shift and stop-gain mutations that alter all downstream amino acids. The plug-in is regularly updated to keep current with dbSNP releases.