Data analysis is carried out using the Mascot software platform (Matrix Science, UK) Bioworks 3.2 (Thermo Instruments, CA) and the X!Tandem software platform. Raw data is extracted from the MS data files using the data extractor module in the Bioworks software package and then are first subjected to protein library search by Mascot, Sequest and by X!Tandem software package as well as de-novo spectral interpretation by using Lutefisk software when needed to validate library matches judged to be ambiguous. The library searching and de-novo interpretation identify the detected proteins form the individual peptides. The results for all proteins detected are collected and listed by protein name, detected peptide sequence(s), search score. The reports will be exported to an XML file for inclusion in a result database.