SILVER: An efficient tool for stable isotope labeling LC-MS data quantitative analysis with quality control methods
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Hardware requirements

Intel Pentium III 500 MHz or higher and 2 GB RAM (at least 1.5 GB RAM) per thread that is executed in parallel is recommended.

Software requirements

Microsoft Windows 7/Vista/2003/XP/2000 (64 bit version or 32 bit version).
To use SILVER.jar and SILVER-view.jar, the JDK 7 or higher is required and can be downloaded from:

And for processing Thermo raw files, some computers need to install Xcalibur v2.2.
Thus we highly recommend the public format mzXML files for quantification.

Quality control tools:

  1. PeptideProphet can be downloaded from:
  2. PepDistiller can be freely downloaded from: (only for Mascot auto-decoy).

Download SILVER now!

Copyright (C) 2013 Cheng Chang & Jiyang Zhang; Department of Bioinformatics ,Beijing Proteome Research Center.
    User guide for SILVER_v1.1
    Test Data
  • Another download link for SILVER at SourceForge: