-- Overview --

A Population Variation plug-in for the Skyline software program that 
can assist researchers in determining whether their target peptides 
have known mutations in the general human population.

-- Details --

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 the Skyline software program can 
assist researchers in determining whether their target peptides have 
known mutations in the general human population. 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.

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Written by Larissa Rodriguez and Grant Fujimoto for the Department of Energy (PNNL, Richland, WA)

E-mail: [email protected] or [email protected] or [email protected]
Website: http://panomics.pnnl.gov/ or http://omics.pnl.gov
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Licensed under the Apache License, Version 2.0; you may not use this file except 
in compliance with the License.  You may obtain a copy of the License at 
http://www.apache.org/licenses/LICENSE-2.0

All publications that result from the use of this software should include 
the following acknowledgment statement:
 Portions of this research were supported by the W.R. Wiley Environmental 
 Molecular Science Laboratory, a national scientific user facility sponsored 
 by the U.S. Department of Energy's Office of Biological and Environmental 
 Research and located at PNNL.  PNNL is operated by Battelle Memorial Institute 
 for the U.S. Department of Energy under contract DE-AC05-76RL0 1830.

Notice: This computer software was prepared by Battelle Memorial Institute, 
hereinafter the Contractor, under Contract No. DE-AC05-76RL0 1830 with the 
Department of Energy (DOE).  All rights in the computer software are reserved 
by DOE on behalf of the United States Government and the Contractor as 
provided in the Contract.  NEITHER THE GOVERNMENT NOR THE CONTRACTOR MAKES ANY 
WARRANTY, EXPRESS OR IMPLIED, OR ASSUMES ANY LIABILITY FOR THE USE OF THIS 
SOFTWARE.  This notice including this sentence must appear on any copies of 
this computer software.