Hi All, I would like to bring attention to a new paper (I am a co-author) on extended TMT multiplexing:
http://www.mcponline.org/content/early/2017/03/21/mcp.M116.065524.full.pdf+html New instrument methods and 10-plex capacity are amazing improvements. However, analysis examples are hard to come by. The methodology does not yet use TPP but could probably be adapted to do so. The important parts of the work are the experimental design itself. We do two channels for the pooled standards because an average of two is a lot better than a single measurement. It only drops the number of biological samples per TMT by 11% (8 instead of 9). The IRS (happy tax time!) method is critical to avoiding ratios. Ratios are more difficult to use in downstream statistical tests. Combining PSMs into total protein reporter ion intensities greatly simplifies analysis. Of course, that may not always be an option in many experiments (phospho peptides come to mind). If anyone has questions, please email me (wilmarth "at" ohsu.edu). Cheers, Phil W. -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
