Bharath Kumar Raghuraman

This is known issue with Orbitraps. We experienced it during my PhD. This is more prominent when you push the quads closer to unit isolation. Thermo performs a software gimmick to compensate for the lose during quad isolation. Good that they discuss it here in detail

They always do this. Why would anyone use 3700 resolution?. Not a useful option IMHO

I thought so. Trapping before ToF pulsing seem to be the way to improve duty cycle in ToF

Is the AIP similar to the one in Astral. Trapping to increase the duty cycle?

Leading these (and many ongoing) projects has been demanding, exhilarating & rewarding.

They required highly coordinated collaborations among diverse experts within PTI, MIT, MGH and beyond.

1/2

The corresponding author on this work @searleb.bsky.social has posted a tutorial diving in on the MAP-MS approach and how it improves MS1 dynamic range:
www.linkedin.com/pulse/how-ma...

Almost intentionally, looks like all of the new Thermo instrument pages are up (Astral Zoom, Excedion Pro, Optispray).
Overall vibes?
Excedion is the bigger upgrade, almost 2x faster and can now do ETD. Astral Zoom improvements are more incremental.
No change to instrument sensitivity specs.

optTMT: A Shiny application to optimize any experimental design to minimize the TMT reporter ion interference zenodo.org/records/1...

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#proteomics #prot-other

Mapping the nanoscale organization of the human cell surface proteome reveals new functional associations and surface antigen clusters The cell surface is a dynamic interface that controls cell-cell communication and signal transduction relevant to organ development, homeostasis and repair, immune reactivity, and pathologies driven b...

Excited to share this new work led by postdoc Brendan Floyd, deep mapping of cell-surface protein interactomes of T and B cells reveals maverick mitochondrial proteins and immune modulatory complexes.

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

Looks like another fantastic proteomics data tool from the @kusterlab.bsky.social Thanks a lot, must read for sure.

Phosphatases: from basic research to translation Phosphatases have been considered undruggable for decades. However, recent breakthroughs with the first small molecule phosphatase inhibitors for cancer immunotherapy now in clinical trials have resu…

If you’re thinking of what meeting to go to this year then check out the #phosphatase meeting in Würzburg. Lots of great speaking slots and events for junior researchers. It’s always a fun meeting meetings.embo.org/event/25-pho...

Not bad for some boring work of a bunch of nerds 🤓 😂
proteomicsnews.blogspot.com/2025/01/boring…

@proteomicsnews.bsky.social

I feel every mass spec vendor want to resurrect IMS since the success of TIMS. I am curious about how PAMAF from Mobilion and its use in Proteomics

Atleast from what j saw and heard at HUPO this year there are minute differences between the Nanomics NP’s and SEER NP’s. One has conjugated peptides to its NP’s and the other not. There could be still a patent infringement

A Kinetic Scout Approach Accelerates Targeted Protein Degrader Development Bifunctional molecules such as targeted protein degraders induce proximity to promote gain-of-function pharmacology. These powerful approaches have gained broad traction across academia and the pharm....

Excited to share our work investigating how ligand residence time influences targeted protein degradation outcomes at scale, and how we can combine kinetic scout degrader approaches with mathematical modeling to accelerate hit finding and optimization!
onlinelibrary.wiley.com/doi/abs/10.1...

YouTube video by ARK Invest Unveiling Proteins: The Future Of Single-Cell Proteomics With Professor Nikolai Slavov

Enjoy the weekend with a discussion about proteomic technologies & the biology progress that they can enable.

They may unblock biology research.

www.youtube.com/watch?v=sGW4...

This paper should be cited in the response to every reviewer questions asking to validate MS results by WB..

Worth a read

PXD036000 🚨

SHP099, an inhibitor of the protein-tyrosine phosphatase SHP2 (encoded by the PTPN11 gene) and trametinib (MEKi) in an NF1 MPNST patient.

🚨 New dataset alert! 🚨

ProAlanase and TrypN works good in our hands

We are! … or will be, we just had a hiccup with the xodus. Last year when we ditched spaces due to Musk, we went back to OG clubhouse. This time we (@ucdproteomics.bsky.social @leannewg.bsky.social) had to chat about it again, hence the delay. Expect announcements here and likely a Dec 4 POTRH.

@benneely.com any plans for continuing POTRH here?