Okay, so I went back and forth on posting this one for a while, but I might honestly be missing something.
I'm certainly missing the RAW data files, because those weren't deposited... but the initial idea seems clever...until you try to design something that can multiplex more than 3 samples at a time....
The basic idea is something like "why swap isotopes around when you could SWAP AMINO ACIDS AROUND?"
As shown in figure 1 - if you had INFINITELY LARGE PEPTIDE LINKED TAGS!
...attached to your tryptic peptides....
(wait. what?)
...you could have INFINITE MULTIPLEXING!
Y'all don't line up immediately to add a 2,000 Da multiplexing tag to your all of your peptides so you can have the equivalent of a TMT 16 plex experiment. I think you should definitely contact the authors first to ask to see these .raw files because there aren't enough details in the method section ....of a paper accepted in ...Analytical Chemistry ... to reproduce the experiment. You can guess some of the settings, though. TopN? Guess. Ion injection time? Guess again! Can you employ normal dynamic exclusion? What is the mass of the tags that were searched in MaxQuant? If you want to know, you need to do the math yourself. Really, just a disappointment to see something slide by an editor and reviewers, particularly when something seems - on the surface - unlikely to work...?
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