Harrison Specht

🧪 Very nice feature!

Multiplexed single-cell proteomics using SCoPE2 - Nature Protocols Biological systems can now be studied at the single-cell level using mass spectrometry. In Single Cell ProtEomics (SCoPE2), a carrier sample is used to enhance peptide sequence identification with mul...

Petelski et al suggest this one: PCR plate, 384-well, standard (Thermo Fisher Scientific, cat. no. AB1384)

Passivation before using with highly pure peptides and using DDM may also help depending on input.

Happy to chat over Zoom if helpful for more ideas!

www.nature.com/articles/s41...

Big day for @neuroproteome.bsky.social All proteomic data released at neuroproteome.org and publications in print. Lots to read on AD, PD, FTD and ALS.

Moving forward to a new era: just loaded our first single cell samples from a demo on the CellenONE using Arabidopsis protoplasts. Very curious to see the results! #proteomics #singlecellproteomics #plantscience #corefacility

📣 We're excited to share the new lean-lang.org!

Relaunching our website was a key deliverable in our Year 2 roadmap to provide "improved navigation and access to valuable content, resources, and tools." We hope you like it!

#LeanLang #LeanProver

@ajbrenes.com has one for proteomics too: go.bsky.app/HH7kqEh

A portion of ye ole MS populace .. go.bsky.app/3XETWrh

We are excited to share that our Director of Proteomics Research, Dr. Sasha Singh, will be speaking at #FOGBoston at the end of this month! Registration is free for over 90% of attendees, so don't miss out! Reserve your spot at hubs.la/Q03cHRdb0. #genomics #biodata

E11 Bio is launching Volara: an open-source Python library for block-wise processing of large volumetric microscopy datasets! 🧪🔬

Volara features block-wise task abstractions, making scalable image processing more accessible, robust, and repeatable.

Read more: e11.bio/blog/volara

Ubiquitin-Proteasome System Dysregulation in Alzheimer's Disease Impacts Protein Abundance Alzheimer's disease (AD) is a relentlessly progressive, fatal neurodegenerative disorder associated with widespread aberrant proteomic changes. The full extent of protein dysfunctions in AD and their ...

The hits keep on coming from @parallelsq.bsky.social! Today we released an exciting use-case for plexDIA in single cell analysis of #alzheimer's disease, characterizing dysregulation of the 20S proteasome. #TeamMassSpec #Proteomics

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

Curious about using PSMtags in your workflow? Let’s chat!
We’re working on even higher plex designs—ideas welcome

Big thanks to the Parallel Squared + MIT + CreaGen teams and everyone who helped synthesize, test, and scale this! 🙌

PSMtags - PTI - Parallel Squared Technology Institute Parallel Squared Technology Institute is a non-profit research institute that’s scaling up proteomics to illuminate the link between protein patterns, functional interactions, and disease.

🧬 All data, code, and protocols are open here: parallelsq.org/PSMtags
📂 Raw MS data: MassIVE MSV000097968
💻 Code: github.com/ParallelSquared/tag

This opens the door for high-throughput, high-confidence proteomics—ideal for large-scale or single-cell studies.

PSM tag also enhances de novo sequencing of challenging peptides, unlocking promise for immunopeptidomics studies.

📊 Using stable isotopes of C/N/O, PSMtags increased protein datapoints from 4,340 (label-free) to 28,359 in the same time. We demonstrate 240 samples per day, but over 1,000 are possible with shorter runs.

That’s millions of protein data points per day.

PSMtags boost b-ion production, enhance de novo sequencing, and enable 9-plexDIA—without sacrificing quant accuracy.

🔬 To find a tag that improves peptide fragmentation, we used split-pool synthesis to create a 576-compound library of peptide-bound tags. The best performer was PSMtag.

Multiplexing DIA is powerful 💡but limited by suboptimal tags.

So we set out to learn how to design better ones.

🧪 Transforming biomedical discovery needs proteomics that is specific and accurate, but also faster and cheaper

@parallelsq.bsky.social is proud to introduce 9-plex PSMtags: a new mass tag that improves sequencing and increases throughput in sensitive proteomics 👇

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

Booking for the @ukbspr.bsky.social post-conference single-cell proteomics workshop is now open!

Numbers are capped at 20 participants, so please register early to avoid disappointment.

payments.liv.ac.uk/conferences-...

If the system tells you it is at capacity, please drop me an email.

Is anyone aware of an exhaustive list of all human histone PTMs identified?

Something like CST’s, except (1) continuously updated and (2) describing the actual modification (e.g. ‘symmetric dimethylation’, instead of ‘methylation’)…

#epigenetics #biochemisty 🧬🧪

🧪💙📚 my bad on the emjois for books and science

how to write opinion piece

Want to speak out on behalf of science and rational thought. Here's a great "cheat sheet" and "how to" to share with your community, friends, colleagues. Local is powerful. Speaking out is important.

sciencehomecoming.com

Single cell proteomics at UofL Proteomics Technology Center. Another tool for dissecting proteomes in disease and biolgy.

🤔 Ever wondered how proteomics thrives in (bio)pharma🚀? How you could provide impact in industry with proteomics background earned in academia?

Please join me and @drawheatcraft.bsky.social for Sunday morning US HUPO 2025 short course 👇

I’m finding a lot of proteins in my blood proteomics work that have no known secretion pathway. Proteins like histone subunits, parts of the nuclear pore complex, and proteosome subunits. Does anyone know how these get into the blood stream? It has to be cell turnover, right?

Drugs Inside Cells - A Bit of Light

A problem articulate by one of my favorite science writers, Derek Lowe.

I think #proteomics scientists may contribute a great solution, too:

www.science.org/content/blog...

Man holding phone saying it’s Jake from science 2nd panel woman says what are you reading Jake from science and 3rd panel Jake replies ummm papers

Had to finish this for @jakeyeston.bsky.social
#ChemSky

Some short-lived (and thus low abundance) proteoforms might be very important to understanding -- analogous to a transition state.