Download
With the advance of experimental technologies, different stable isotope labeling methods have been widely applied to quantitative proteomics. Here, we present an efficient tool, named SILVER for processing 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 quantification confidence filters and indices are used to improve the accuracy of quantification results. The per-formance of SILVER was verified and compared with MaxQuant and Proteome Discoverer using a large-scale dataset and two standard datasets. The results suggest that SILVER shows high accuracy and robustness while consuming much less processing time. Additionally, SILVER provides user-friendly interfaces for parameter setting, result visualization, manual validation and some useful statistics analyses. SILVER was published in Bioinformatics (Bioinformatics 30, 586-587,2014.)
Features
- Quantitative proteomics
- Software development
- Mass spectrometry
- Algorithm
- Stable isotope labeling
Project Samples
Follow SILVER
User Reviews
-
SILVER is an efficient tool for quantification of the stable isotope labeling mass spectrometry data including novel methods for quality control of quantification at spectrum, peptide and protein levels, respectively. The future version of SILVER will include more labeling methods such as the iTRAQ, TMT, Dimethyl and so on.
