Whoa! This has been a big week or two for plasma proteomics! And this multi-center evaluation goes after the most important part of it - who gives a rat's ass if we can detect a protein? Not me and not you - what we cant to do is accurately quantify it! Let's spike in all sorts of stuff and have everyone you know run it!
All sorts of instruments are employed in this study and -
HOT DAMN - Did they get 4,000 proteins in neat plasma?????
Oh. Okay, When you put E.coli and Yeast into plasma, even at low concentrations on a really nice instrument from any vendor you can get a couple thousand proteins. (Cause it's not too hard to see 3,000 proteins in yeast or 1,000 proteins in E.coli.)
When you get down to Figures 7f and 7g you see numbers that make a lot more sense. 400-ish proteins in neat plasma.
There are a ton of fundamental observations in this study that are critical to think about regardless of your instrument or whether you do plasma proteomics or not. How does DDA compare to DIA? Where is lower resolution/faster TOF better than slower but higher resolution Orbitrap scans - and vice versa.
Super super super cool study.
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