Bioinformatics Solutions Inc. have just released PEAKS Q, a Software for MS-based Quantification of Stable Isotope Labeled Peptides.
Several mass spectrometry-based stable isotope labeling technologies have been developed for global proteome profiling. These include methods for in vivo labeling, such as 14N/15N and SILAC (Stable Isotope Labeling with Amino Acids in Cell Culture), and in vitro isotope labeling of target peptides at their N/C terminal or at specific residues. PEAKS-Q, was designed to automatically identify and quantify proteins from these isotope labeling experiments. The software is written in Java and includes an intuitive graphical user interface.
In preliminary testing, PEAKS Q has demonstrated to be robust and an easy to use software for quantification of peptides from mass spectrometry. Its protein quantification accuracy is well within experimental error, and significance of abundance changes between samples is easy to see. Inquires for a copy of the free beta version can be located on the PEAKS Software Download page.