itsbinir.bsky.social
Mass Spectrometry/Proteomics nerd....
606 posts
749 followers
334 following
Prolific Poster
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Many angry Q-Trap users as well.. Its a bad move by Sciex..
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Is the degradation profiled by reduction in protein abundance?? Or by monitoring the ubiquitination?? A traditional differential expression analysis works like a charm for the former..
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It does sound like 'can't expect the chicken to swim in the evening' could figuratively mean an impossible scenario of expectations.. It could easily be the origin story of this idiom.. Just like all those existing idioms human intelligence came up with.. Witnessing the AI appraisal here I guess..
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Why is a similar increase in IDs not seen for OT Velos & Elite?? Anything to do with ion trap vs quadrupole isolation'??
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Yeah.. Saw their post.. 😉
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While reproducing mass spec omics results from published papers with the raw data shared is indeed a cause of concern, I often wonder how well it works with other fields like microscopy. I am not sure how diligently raw data is shared there and how reproducible image analysis based observations are.
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If enough sample is present and the hydrophobic junk is not getting carried over, I would reinject a high on-column load, preferably 2x, to confirm the peptide availability in the samples.. If detergents are used in affinity pulldown, SP3 or S-trap would be ideal for sample prep .
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Looks like the sample could be the problem here.. The response is half in the lower TIC.. How does the BPC look?? Was the peptide conc comparable post digestion?? Might be the background ions eluting at the high organic range.. Are these total lysates or any sort of enriched samples?