Okay - did I ever pick a great week to go hang out at an old military installation with no internet so I could focus!
First off, before I get too excited, is this real? I mean, can I download like 19,000 plasma proteomes?
Okay, so you get part of the story. SWATH/DIA plasma proteomes of thousands of people! You're pumped? Here is the paper!
Gradient looks like around 20 minutes using an Eksigent trap/elute system running around 10 microliters/minute. Probably given the trap elute I'm guessing around 25-30 minutes per sample. Variable window DIA with 50 windows. TRACKING A LONGITUDINAL COHORT OF LIKE 4,000 different people with multiple sampling events over 10 years! So so so so cool.
Get this. They processed it all with DIA-NN using a library of only around 800 proteins from their library. Absolutely makes sense. But can you imagine how much more can be mined out of this as DIA algorithms continue to evolve? Re-mine this in 5 years when the algorithms are faster and computers are way way faster and you can actually consider a much larger and deeper depth of human protein expression in plasma! The kind of goldmine for protein biomarker discovery we've been dreaming of and little birdies keep telling me there are a bunch more on the way. It's just that things like these take a long time to do!