My job? Data plumber and analyst, same as now. I scripted the nuts-and-bolts of matching the mass/time/time data off the instrument being developed by much more qualified PhD candidates and their advisor while I finished up my own degree. They did the heavy lifting. I was paid for by F&A funds to do the boring work. Great job for a student.
The job lead to a failed business venture. Water under the bridge. My last foray in data analysis was Principal Component Analysis of the data, trying to cluster detected proteins for visual analysis. I got the plots working outside of Matlab, and then my position was eliminated.
I have a rag-mag credit I could chase down to support my war story. To be honest, I read the article looking for familiar names and faces.
None found.
However I don’t think many academic labs have those mass specs because CROs and pharmaceutical companies have been buying out Bruker’s entire production line and running them almost 24/7 to analyze samples from clinical trials. Since they’re limited in how much blood they can draw per patient, those mass specs significantly expand the number of analytes they can test for and they’re willing to pay serious money for that.
skadamou•18h ago
edit: Does anyone familiar with the field know what the significance of being able to run protein mass-spec an order of magnitude faster is? What kind of questions can we ask now that we couldn't ask before?
marcosdumay•18h ago
Well, it's probably because `they figured out how to run protein mass-spec "by an order of magnitude" faster'.
srameshc•18h ago
skadamou•17h ago
The article links this to Alzheimer's research but I was hoping someone on here familiar with the field would be able to point out how significant this advancement is.
marcosdumay•17h ago
0cf8612b2e1e•17h ago
Barcodes that can 9 plex samples? Thermo TMT is up to 32 plex. Multiple injections with time offset? Also not a new idea.
What is unstated is that there is no free lunch. You can go fast or you can go “deep” (high resolution/separation). Running a MS at breakneck speed does work, but you are sacrificing quantitative accuracy and the depth of proteome coverage. Which is entirely valid way run, depending on your use case. Work in a hospital and need to do 1000 samples a day? Fast and targeted makes sense. Trying to discover some novel Alzheimer’s biomarker? You want to go slowly and measure everything you can.
Ultimately this is going to be just another tool available for researchers who have to weigh the pros and cons for the particulars of their samples.
The mention of PTMs was also a bit of a distraction. Measuring PTMs is an entirely different level of sophistication for which fast MS is rarely appropriate.
Edit: I should add that Alzheimer’s was probably just used as marketing copy, but is a terrible example for ludicrous-speed-go. Human Alzheimer’s samples are incredibly hard to procure. You either need brain or spinal fluid (apparently very painful to extract from the living). For precious samples you are usually willing to operate more slowly to ensure you do a better job.