Can nanoparticles help us probe the glycoproteome? The new pre-print from @riley-research.bsky.social seeks to answer this question using the Proteograph technology from Seer Inc. Check out this lovely study on glycoproteins NP-enriched from biofluids here: chemrxiv.org/engage/chemr...

Real-time API control of mass specs has been hard to get started (C#, VS, etc). Mike Hoopmann's recent work makes dev easier & more open!: Nova - lightweight dev library schweppelab.github.io/Nova/ pubs.acs.org/doi/full/10.... Helios - a unified instrument API now @ JPR github.com/SchweppeLab/...

After five great years, my journey in the Schweppe Lab and at UW has come to a close. Huge thanks to @dschweppe.bsky.social and all the amazing labmates for making graduate school such a wonderful experience. Extremely grateful for the memories and all the help I received along the way.

(JASMS) [ASAP] Dynamic Quadrupole Selection to Associate Precursor Masses with MS/MS Products in Data-Independent Acquisition: Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00110 (RSS) #MassSpecRSS #JASMS

News in Proteomics Research blog post | Nova! Build all the mass spec tools! proteomicsnews.blogs... --- #proteomics #prot-other

"I invite all researchers to enter the glycoproteomics field and join the battle.” With the complexity of glycoproteomics and how little we still know, Tim Veth puts out a rallying cry to speed up development in this promising field. Learn more about Tim & read our discussion: bit.ly/3IXpo8B

Nova: A Library for Rapid Development of Mass Spectrometry Software Applications pubs.acs.org/doi/10.... --- #proteomics #prot-paper

Announcing the yEvo Mutation Browser, a Shiny app for visualizing and exploring sequencing data from experimental evolution and genetic screens. This is the latest from our @yevolab.bsky.social high school teaching & research project and led by my grad student Leah. www.biorxiv.org/content/10.1...

If you asked me 5 years ago if it would be possible to use a de novo tool on DIA data, I would have thought it would only exist in science fiction. Love being proved wrong. Great work from Justin Sanders. #proteomics #massspectrometry www.nature.com/articles/s41...

Thanks so much @dschweppe.bsky.social!!! Couldn’t ask for a better place to do graduate school than the Schweppe Lab!

Huge congratulations to @chrismcgann.bsky.social who passed his PhD dissertation defense yesterday with flying colors!! Dr. McGann was the lab’s first PhD student and now first graduate! So excited and proud of all of the things he’s accomplished!

Comet's open-source Fragment-Ion Indexing work is live at JPR (@acs.org). @chrismcgann.bsky.social, Jimmy Eng and Erik Bergstrom showed how Comet could be dramatically sped up to keep pace with modern instrumentation and increasing sample sizes: pubs.acs.org/doi/full/10....

Assessing error control is fundamental in mass spectrometry-based proteomics. @bo-wen.bsky.social @maccoss.bsky.social @urikeich.bsky.social et al introduce a theoretical foundation for entrapment along with a method for more accurate evaluation of FDR control. www.nature.com/articles/s41...

Congrats to @chrismcgann.bsky.social (and the other awardees) for receiving an @asms.org Graduate Student Travel Award!! Photo credit to Katarina for capturing the moment!

Thanks to everyone who came out to the Real time MS bioinformatics hub yesterday! Great to chat about current and new directions! Here’s some action shots of Mathieu and Mike leading the discussion.

#ASMS2025 offers great evening workshops. If you are interested in real-time decision-making during MS data acquisition or still looking for one to join, consider the Real time Mass Spectrometry Workshop featuring speakers and panelists Sarah Sipe, Aarthie Senathirajah, and Manuel Peris Diaz.

Nova: A library for rapid development of mass spectrometry software applications www.biorxiv.org/cont... --- #proteomics #prot-preprint

A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data www.biorxiv.org/content/10.1...

impressive work!

This JAMA Insights explores the capability of proteomics to analyze thousands of proteins in patient samples, which could improve clinicians’ understanding of and ability to treat a wide range of diseases. ja.ma/4jvNHbP #MedSky

This prototype 908 devices SPE-CZE column and emitter combination looks to be the separation method to beat for localising phosphosites on multiply phosphorylated peptides.

SPE-CZE-MS quantifies zeptomole concentrations ofphosphorylated peptides https://www.biorxiv.org/content/10.1101/2024.12.07.627347v1

That’s a wrap, we’ve uploaded our version of record for the large scale PISA work led be Jon & co. to @elife.bsky.social : elifesciences.org/articles/95595 Thanks to the reviewers for helping us improve the manuscript, enjoyed the process of developing this resource.

Our Autonomous Dissociation-type Selection (ADS) method is published in JPR! This intelligent data acquisition approach uses RTLS to make fragmentation decisions as data is collected to improve glycoproteome sampling. Congrats to all involved! #glycotime #TeamMassSpec pubs.acs.org/doi/10.1021/...