I keep being surprised about how such things end up in a peer-reviewed journal? And how can there be such a lack of statistical understanding in the first place? #peerreview #biostatistics #bioinformatics @nature.com @naturemedicine.bsky.social

or the emitter is complete crap

based on your TIC, there does not seem to be any voltage on the source. Is it plugged in correctly?

#singlecell #bioinformatics #machinelearning

intentionally left "blank"....
I thought the same, but still just a preprint

ACX Instruments

www.acxinst.com/products

www.biorxiv.org/content/10.1...

Has anybody seen this BOXmini SCP device in action? How many cells can one prep in what time?

#proteomics #singlecell

and, am I correct that without being registered at the UK Biobank (@ukbiobank.bsky.social)
one can not actually access the "input" data? I mean, nice repositories but useless if one cannot access the input data.

curious to try this out. Is there a timeline for timsTOF support? And what about Astral?

Single-cell proteomic and transcriptomic analysis of macrophage heterogeneity using SCoPE2 - Genome Biology Background Macrophages are innate immune cells with diverse functional and molecular phenotypes. This diversity is largely unexplored at the level of single-cell proteomes because of the limitations o...

the SCoPE2 paper sets the bar even though already 5 years since published genomebiology.biomedcentral.com/articles/10....

what kind of samples were run on this MS?

I think in PXD054127 "hybrid" only refers to generating a spectral library from DDA and DIA runs combined. The PRM/DIA was actually data acquisition, right?

not sure about the concurrence TMT6 and TMTpro - are these different experiments / sample batches?

Usually when establising/running a protocol one does a label check, to see if >98% of peptides are TMT-labelled. For this we set it as variable modification. While for actual quant it seem common run it as "static", i.e. omitting all unlabelled peptides from quant

The reactive group group of TMT (NOT iodoTMT) reacts with amine groups. Which are the N-termini as well as Lysine sidechain.

Hi Yishai, I see this is quite old post. But curious if RawBeans is still (again?) under active development? I.e. for timsTOFs and Astral? Would be absolutely great to have is back! Even just the functionality to get a matrix of QC parameters #proteomics #teammassspec

maybe a daft question, but why does DIA require two CVs? Never heard that. And FAIMS is way too slow for CV switching if you don't run 2h+ gradients