Virtually all of proteomics data processing these days requires a proper monisotopic assignment to make a match. It's also probably no surprise that today's instruments are trained on perfect tryptic digests.
What if I told you that there is a huge spreadsheet showing that monoisotopic assignments of big peptides (like crosslinked peptide species) are messed up a large percentage of the time?!?
Don't worry! There's a fix and it's in press at JPR here!
The spreadsheet is in the supplemental -- and it's from a very modern instrument!
Hi Ben, I love your blog, I'm always finding something new and interesting.
ReplyDeleteOne thing I want to mention is that in this paper, although they did a review of the literature, they missed out one software suite that already does this (albeit it has not been emphasized in the original publication) - The Mass Spec Studio: http://www.mcponline.org/content/early/2016/07/13/mcp.O116.058685
Disclaimer: I am from the lab that built this software.