Mass Spec refresher, final sample prep (+PRTC, transferring to autosampler vials) Prepare PRTC from stock solution to add to samples: As in the DIA preparation I did the following with Peptide Retention Time Calibration Mixture ThermoFisher #88320, stock concentration is
RNA Isolation – Olympia oyster gonad tissue in paraffin histology blocks
My previous go at this was a little premature – I didn’t wait for Laura to fully annotate her slides/blocks. Little did I know, the tissue was mostly visceral mass and, as such, I didn’t hit much in the way
Second SRM sample prep
Readied last 25 peptide samples for mass spec 0) Labeled mini centrifuge tubes with second batch of samples, and reviewed calculated volumes of sample & Final Solvent to add to each: 1) Borrowed one last 20ul aliquot of PRTC stock
Checking in on my oysters
Stopped by Manchester for the AM to check on things. Downwellers inside were very dirty, holding lots of water but not overflowing. I cleaned them with fresh water. I have 9 larval groups left (down from 16). Changed banjos. Water
Predicting Retention Times to asses Assay Success
Using DIA PRTC retention time data to predict SRM RT, then confirming that assays are present in my samples 1) Used the PRTC peptides.sky.zip skyline doc in Skyline Daily, imported my converted DIA sample files, then exported a Peptide Retention