PastelBio#proteomics | 15th Australian Peptide Conference | 15-20 Oct, 2023 | Brisbane, Australia https://www.peptides2023.org/
Phil WilmarthI find it amusing that proteomics biomarker studies mostly fall into this category: we tried to remove blood proteins from blood samples so we could (maybe) see non-blood proteins in blood. Because the easiest way to find your car keys you lost in your house is to remove all of the items that are larger than car keys from the house and then look around for the keys...
Brian Hampton@pwilmart This method for plasma fractionation is one of those that makes me say to myself ... why didn't I think of that!
Rather than remove all the stuff from the house to find the car keys, they spin down the house and look at the bottom of the tube for them, and there they are.
https://doi.org/10.1002/pmic.202200039
#plasma #proteomics #teammassspec #centrifugation #EV #vesicles #EVOSep #SPE
@neely also works on blood proteomics I think.
@ionurchin @neely These different methods are all ways of creating biased proteomes enriched for some proteins and depleted of others. What is enriched (and why) and depleted varies by method. There needs to be a compelling biological argument about why a biologically informative protein for your disease would be among the enriched proteins in any given method. I don't think these are universal methods that can be applied to any biological situation. Counting protein IDs isn't a proper metric.
@pwilmart @neely Well, I misstated. Not really fractionation. Spinning down (isolating) the EVs is akin to spinning out the cellular material or platelets and looking at that "fraction". I think since EVs are secreted (excreted?) from cells, the ability to isolate them from the milieu of blood will provide a rich source of proteins for biomarker studies. Leigh Anderson, I believe, once anticipated finding "all" proteins in blood - useful for diagnostics. Still in the future though.