SILVER is an efficient tool for quantification of the stable isotope labeling mass spectrometry data. SILVER implements novel methods for quality control of quantification at spectrum, peptide and protein levels respectively. Several new confidence filters and indices are applied to improve the accuracy of quantification results. Additionally, SILVER provides user-friendly interfaces for parameter setting, quantitative analysis, result visualization and manual validation as well as some useful statistics analyses.
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Bioinformatics. 2014 Feb 15;30(4):586-7. doi: 10.1093/bioinformatics/btt726. Epub 2013 Dec 15.
SILVER: an efficient tool for stable isotope labeling LC-MS data quantitative analysis with quality control methods.
Chang C1, Zhang J, Han M, Ma J, Zhang W, Wu S, Liu K, Xie H, He F, Zhu Y.