Erwin Schoof

Quick heads up - there will soon be a job posting for a Staff Scientist / Senior Staff Scientist in our lab in Copenhagen to support all our mass spec proteomics adventures!

Great colleagues, lots of cool projects… and you’ll get to work with me 😅

Please DM if you’re interested!

This looks like a fantastic resource to study human kinase signalling. So much MS instrument time.

Super exciting Matthias, congratulations! 😃

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@kentsisresearch.bsky.social develop a proteogenomics workflow to detect 1000s of unknown cancer proteins. PG3 combines long-read RNA sequencing with multi-protease MS to discover non-canonical proteins in cancer cells. Used a timsTOF HT, nanoElute 2 & Aurora Ultimate 25x75 column:
bit.ly/4mlQSmu

When testing a computational data analysis method: simulated data are good for checking whether the method is doing what you think it should be doing, real data for checking whether what you think it should be doing is any good.

Are Solid Particles Ready for Prime-Time Proteomics? pubs.acs.org/doi/10....



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#proteomics #prot-paper

Start of the European symposium in single cell proteomics at beautiful Viena with a workshop on spatial proteomics organised by @coscialab.bsky.social

Mapping early human blood cell differentiation using single-cell proteomics and transcriptomics www.science.org/doi/...

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#proteomics #prot-paper

Only a few more hours! 😃

Mapping early human blood cell differentiation using single-cell proteomics and transcriptomics Single-cell transcriptomics (scRNA-seq) has facilitated the characterization of cell state heterogeneity and recapitulation of differentiation trajectories. However, the exclusive use of mRNA measurem...

We’re excited to present this integrative analysis of single-cell proteomics and transcriptomics of the human HSPC hierarchy. Now published in @science.org together with @fabiantheis.bsky.social, @erwinschoof.bsky.social, @porsebo.bsky.social.
www.science.org/doi/10.1126/...
🧵

Here’s an interesting story for #teammassspec. Liraglutide went generic in December 2024 and we have been developing methods for impurity characterization but we kept seeing an unusual modification with a +12 Da shift. A little digging revealed that others had noticed that the n-terminal histidine..

That was a later upgrade as projects got bigger and bigger - long live the RAID cards 😅

We built a custom Thread ripper (7980X) rig with 256Gb of RAM and 24Tb of SSD to plough through all the single-cell raw files. Up-front investment, but cheaper in the long run compared to paying for CPU time on an HPC. And it's FAST, runs my whole lab! 😅

Very cool stuff indeed Luke, congrats!

Pumped to finally show off our spatial proteomics work presented a few weeks ago at the EAS Congress @eassociety.bsky.social and now live on @biorxivpreprint.bsky.social 🥳

Time for a science thread! #TeamMassSpec #SpatialProteomics #AtheroSky 🧵

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

Tried presenting my data at #EuPA2025. Then decided to scale things up... Turns out, volcano plots look great in sand and people are more interested in what we scientists do.
#Proteomics #YPIC #YPIContest2025

The reports of Bluesky’s death have been greatly exaggerated

The financial crisis of the HE sector in the UK now leads to increased numbers of grant and fellowship applications, pushing down the success rates. Since also overheads increased, in some cases we will see success rates halved.

There is a BBSRC fellowship which will have a success rate of 5%.

It is so crazy! Not that I have answers, but more money is clearly needed to bring funding rates back to 15-20% to ensure all the great ideas get to be pursued. And this problem is unfortunately not limited to the UK; a Danish call earlier this year only funded 4 out of 77 applications-> that's 5%!

#ThermoFisher #IonOpticks #EvoSep #Cellenion #Biognosys

And last but not least, a big shout out to our valuable tech partners, without whom we couldn't do what we really want: namely making a difference in the world with biological discoveries through single-cell proteomics by Mass Spectrometry

Another big shout out to the organizers of #EuPA2025 who allowed me to share our recent results with the community, and who did a fantastic job putting together such a great conference of nearly 500 people in a location most of us only dream about visiting.

Big shout out to my lab who enabled me to present some of the cool stuff they spend their valuable energy on, to #DTUBioengineering for hosting our efforts, and my funders for funding our work.

On my way home from what was an absolute blast of a EuPA2025 in the lovely Saint-Malo in France. So much great science, amazing people, old & new friends, and not the least, our valuable tech partners. The future of proteomics is clearly still only beginning & we all seem to be enjoying the ride! :)

Thanks for the share and update - we certainly benefit from all the amazing tech in scp-MS!

The year of "How deep can we go?"
Erwin Schoof presents a view of the deepest proteome coverage across various cell types at #EuPA2025, using the newly released Orbitrap Astral Zoom. Analysing 40 HEK2983T cells per day, using an Aurora Ultimate 25x75 will consistently get you ~6,000 protein IDs.

Ok thanks, please do keep us posted if you hear anything, as will I. Nice to know it's not a hard "no" at least!

Well done buddy, fingers crossed! 🤞🏻

So does that mean you actually have it working reproducibly on your OT-2? Ours never worked well unfortunately, so we're also still stuck with spinning, and a bit annoyed when we found out the Flex head doesn't interface with EvoTips - if you hear more about the Flex work, that would be amazing :)